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Conserved domains on  [gi|17508421|ref|NP_492257|]
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Meiotic spindle formation protein mei-1 [Caenorhabditis elegans]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 195-359 6.28e-87

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


:

Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 263.06  E-value: 6.28e-87
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 195 IIGMHDVKQVLHEAVTLPLLVPEFFQGLRSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIV 274
Cdd:cd19509   1 IAGLDDAKEALKEAVILPSLRPDLFPGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKIV 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 275 RLLFELARFYAPSIIFIDEIDTLGGQRGnSGEHEASRRVKSEFLVQMDGSQNKfDSRRVFVLAATNIPWELDEALRRRFE 354
Cdd:cd19509  81 RALFALARELQPSIIFIDEIDSLLSERG-SGEHEASRRVKTEFLVQMDGVLNK-PEDRVLVLGATNRPWELDEAFLRRFE 158


                ....*
gi 17508421 355 KRIFI 359
Cdd:cd19509 159 KRIYI 163
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 53-419 1.60e-68

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


:

Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 224.02  E-value: 1.60e-68
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  53 DEHDARNTFLRALEANLKLVQQNVRDEDDLHEAMTRQSGSPEPPADPDVWSKPSPPLPSSSKFGATKKGVGAAGPRPREI 132
Cdd:COG0464  18 LDDAALRLLLLLLLALAAALLLLLLLLLLLLLALLLVELLLLLLSGALAALLLLALLLLALLALLAALLSALELLLLGEL 97

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 133 SKSTSSMSTNPADVKPANPTQGILPQNSAGDSFDASAYDAYiVQAVRGTMATNTENTMSLDDIIGMHDVKQVLHEAVTLP 212
Cdd:COG0464  98 LLLLLLLLLLLLLLLDLERALLELLRESAEALALAAPLVTY-EDIGGLEEELLELREAILDDLGGLEEVKEELRELVALP 176

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 213 LLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLFELARFYAPSIIF 290
Cdd:COG0464 177 LKRPELREeyGLPPP-RGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKYVGETEKNLREVFDKARGLAPCVLF 255

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 291 IDEIDTLGGQRGNSGEHeASRRVKSEFLVQMDGsqnkfDSRRVFVLAATNIPWELDEALRRRFEKRIFIPLPDIDARKKL 370
Cdd:COG0464 256 IDEADALAGKRGEVGDG-VGRRVVNTLLTEMEE-----LRSDVVVIAATNRPDLLDPALLRRFDEIIFFPLPDAEERLEI 329

                       330       340       350       360
                ....*....|....*....|....*....|....*....|....*....
gi 17508421 371 IEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAINVLRRYDTK 419
Cdd:COG0464 330 FRIHLRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQALRLGREP 378
 
Name Accession Description Interval E-value
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 195-359 6.28e-87

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 263.06  E-value: 6.28e-87
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 195 IIGMHDVKQVLHEAVTLPLLVPEFFQGLRSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIV 274
Cdd:cd19509   1 IAGLDDAKEALKEAVILPSLRPDLFPGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKIV 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 275 RLLFELARFYAPSIIFIDEIDTLGGQRGnSGEHEASRRVKSEFLVQMDGSQNKfDSRRVFVLAATNIPWELDEALRRRFE 354
Cdd:cd19509  81 RALFALARELQPSIIFIDEIDSLLSERG-SGEHEASRRVKTEFLVQMDGVLNK-PEDRVLVLGATNRPWELDEAFLRRFE 158


                ....*
gi 17508421 355 KRIFI 359
Cdd:cd19509 159 KRIYI 163
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 166-436 2.34e-80

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 252.23  E-value: 2.34e-80
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 166 DASAYDAYIVQAVRGTMATNTENTMSLDDIIGMHDVKQVLHEAVTLPLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIA 243
Cdd:COG1222  51 NDANLTQKRLGTPRGTAVPAESPDVTFDDIGGLDEQIEEIREAVELPLKNPELFRkyGIEPP-KGVLLYGPPGTGKTLLA 129

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 244 RAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLFELARFYAPSIIFIDEIDTLGGQRGNSGEHEASRRVKSEFLVQMDG 323
Cdd:COG1222 130 KAVAGELGAPFIRVRGSELVSKYIGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTDDGTSGEVQRTVNQLLAELDG 209

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 324 sqnkFDSR-RVFVLAATNIPWELDEALRR--RFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGAD 400
Cdd:COG1222 210 ----FESRgDVLIIAATNRPDLLDPALLRpgRFDRVIEVPLPDEEAREEILKIHLRDMPLADDVDLDKLAKLTEGFSGAD 285

                       250       260       270
                ....*....|....*....|....*....|....*.
gi 17508421 401 VVSLCRTAAINVLRRYDTkSLRGGELTAAMESLKAE 436
Cdd:COG1222 286 LKAIVTEAGMFAIREGRD-TVTMEDLEKAIEKVKKK 320
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 53-419 1.60e-68

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 224.02  E-value: 1.60e-68
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  53 DEHDARNTFLRALEANLKLVQQNVRDEDDLHEAMTRQSGSPEPPADPDVWSKPSPPLPSSSKFGATKKGVGAAGPRPREI 132
Cdd:COG0464  18 LDDAALRLLLLLLLALAAALLLLLLLLLLLLLALLLVELLLLLLSGALAALLLLALLLLALLALLAALLSALELLLLGEL 97

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 133 SKSTSSMSTNPADVKPANPTQGILPQNSAGDSFDASAYDAYiVQAVRGTMATNTENTMSLDDIIGMHDVKQVLHEAVTLP 212
Cdd:COG0464  98 LLLLLLLLLLLLLLLDLERALLELLRESAEALALAAPLVTY-EDIGGLEEELLELREAILDDLGGLEEVKEELRELVALP 176

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 213 LLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLFELARFYAPSIIF 290
Cdd:COG0464 177 LKRPELREeyGLPPP-RGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKYVGETEKNLREVFDKARGLAPCVLF 255

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 291 IDEIDTLGGQRGNSGEHeASRRVKSEFLVQMDGsqnkfDSRRVFVLAATNIPWELDEALRRRFEKRIFIPLPDIDARKKL 370
Cdd:COG0464 256 IDEADALAGKRGEVGDG-VGRRVVNTLLTEMEE-----LRSDVVVIAATNRPDLLDPALLRRFDEIIFFPLPDAEERLEI 329

                       330       340       350       360
                ....*....|....*....|....*....|....*....|....*....
gi 17508421 371 IEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAINVLRRYDTK 419
Cdd:COG0464 330 FRIHLRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQALRLGREP 378
cell_div_CdvC NF041006
cell division protein CdvC;
191-471 5.41e-59

cell division protein CdvC;


Pssm-ID: 468935 [Multi-domain]  Cd Length: 371  Bit Score: 198.42  E-value: 5.41e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  191 SLDDIIGMHDVKQVLHEAVTLPLLVPEFFQgLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDS 270
Cdd:NF041006 101 TFSDIVGLEDVKEALKEAIVYPSKRPDLFP-LGWP-RGILLYGPPGCGKTMLAAAVANEIDSEFIHVDAASIMSKWLGEA 178

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  271 EKIVRLLFELARFYA-----PSIIFIDEIDTLGGQRGNSGEHEAsrRVKSEFLVQMDGSQNKFDSRRVFVLAATNIPWEL 345
Cdd:NF041006 179 EKNVAKIFKKAREKSkeegkPAIIFIDEIDALLGVYSSEVGGEV--RVRNQFLKEMDGLQDKSENYHVYVIGATNKPWRL 256

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  346 DEALRRRFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAINVLRRYDTKSLrgGE 425
Cdd:NF041006 257 DEPFLRRFQKRIYIPLPDREQRLELLKYYTSKIKLENDVDLDELAEMTEGYTASDIRDIVQAAHMRVVKEMFEKGL--GE 334

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*...
gi 17508421  426 LTA-AMEslkaelvrniDFEAALQAVSPSAGPDtMLKCKE-WCDSFGA 471
Cdd:NF041006 335 PRPiTME----------DFKEVLKIRKPSVNQE-MLKAYEaWHEKFKA 371
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 193-460 1.31e-56

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 200.13  E-value: 1.31e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   193 DDIIGMHDVKQVLHEAVTLPLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDS 270
Cdd:TIGR01243 453 SDIGGLEEVKQELREAVEWPLKHPEIFEkmGIRPP-KGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGES 531

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   271 EKIVRLLFELARFYAPSIIFIDEIDTLGGQRGNSGEHEASRRVKSEFLVQMDGSQNKFDsrrVFVLAATNIPWELDEALR 350
Cdd:TIGR01243 532 EKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSN---VVVIAATNRPDILDPALL 608

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   351 R--RFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAINVLRRYDTKSLRGGELTA 428
Cdd:TIGR01243 609 RpgRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAKEKLEVG 688

                         250       260       270
                  ....*....|....*....|....*....|..
gi 17508421   429 AMESLKAELVRNIDFEAALQAVSPSAGPDTML 460
Cdd:TIGR01243 689 EEEFLKDLKVEMRHFLEALKKVKPSVSKEDML 720
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 193-450 1.53e-52

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 181.57  E-value: 1.53e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  193 DDIIGMHDVKQVLHEAVTLPLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDS 270
Cdd:PRK03992 131 EDIGGLEEQIREVREAVELPLKKPELFEevGIEPP-KGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIGEG 209

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  271 EKIVRLLFELARFYAPSIIFIDEIDTLGGQR---GNSGEHEASRRVkSEFLVQMDGsqnkFDSR-RVFVLAATNIPWELD 346
Cdd:PRK03992 210 ARLVRELFELAREKAPSIIFIDEIDAIAAKRtdsGTSGDREVQRTL-MQLLAEMDG----FDPRgNVKIIAATNRIDILD 284

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  347 EALRR--RFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAINVLRRydtkslrgg 424
Cdd:PRK03992 285 PAILRpgRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGMFAIRD--------- 355

                        250       260
                 ....*....|....*....|....*.
gi 17508421  425 eltaameslKAELVRNIDFEAALQAV 450
Cdd:PRK03992 356 ---------DRTEVTMEDFLKAIEKV 372
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 229-361 1.34e-46

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 157.76  E-value: 1.34e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   229 MVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLFELARFYAPSIIFIDEIDTLGGQRgNSGEHE 308
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSR-GSGGDS 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 17508421   309 ASRRVKSEFLVQMDGSQNkfDSRRVFVLAATNIPWELDEALRRRFEKRIFIPL 361
Cdd:pfam00004  80 ESRRVVNQLLTELDGFTS--SNSKVIVIAATNRPDKLDPALLGRFDRIIEFPL 130
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 225-363 1.45e-16

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 76.64  E-value: 1.45e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421    225 PWKAMVLAGPPGTGKTLIARAIA-----------------SESSSTFFTVSSTDLSSKWRGDSEKIVRLLFELARFYAPS 287
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALArelgppgggviyidgedILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPD 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 17508421    288 IIFIDEIDTLggqrgnsgeHEASRRVKSEFLVQMDGSQNKFDSRRVFVLAATNIPWELDEA-LRRRFEKRIFIPLPD 363
Cdd:smart00382  81 VLILDEITSL---------LDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPAlLRRRFDRRIVLLLIL 148
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 383-415 2.58e-09

AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.


Pssm-ID: 465537 [Multi-domain]  Cd Length: 45  Bit Score: 52.54  E-value: 2.58e-09
                          10        20        30
                  ....*....|....*....|....*....|...
gi 17508421   383 EINYDDLAARTEGFSGADVVSLCRTAAINVLRR 415
Cdd:pfam17862   1 DVDLEELAERTEGFSGADLEALCREAALAALRR 33
 
Name Accession Description Interval E-value
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 195-359 6.28e-87

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 263.06  E-value: 6.28e-87
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 195 IIGMHDVKQVLHEAVTLPLLVPEFFQGLRSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIV 274
Cdd:cd19509   1 IAGLDDAKEALKEAVILPSLRPDLFPGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKIV 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 275 RLLFELARFYAPSIIFIDEIDTLGGQRGnSGEHEASRRVKSEFLVQMDGSQNKfDSRRVFVLAATNIPWELDEALRRRFE 354
Cdd:cd19509  81 RALFALARELQPSIIFIDEIDSLLSERG-SGEHEASRRVKTEFLVQMDGVLNK-PEDRVLVLGATNRPWELDEAFLRRFE 158


                ....*
gi 17508421 355 KRIFI 359
Cdd:cd19509 159 KRIYI 163
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 194-359 7.10e-81

Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is the catalytic subunit of the Katanin complex which is severs microtubules in an ATP-dependent manner, and is implicated in multiple aspects of microtubule dynamics. In addition to the p60 catalytic ATPase subunit, Katanin contains an accessory subunit (p80 or p80-like). The microtubule-severing activity of the ATPase is essential for female meiotic spindle assembly, and male gamete production; and the katanin complex severing microtubules is under tight regulation during the transition from the meiotic to mitotic stage to allow proper embryogenesis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410930 [Multi-domain]  Cd Length: 170  Bit Score: 247.98  E-value: 7.10e-81
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 194 DIIGMHDVKQVLHEAVTLPLLVPEFFQGLRSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKI 273
Cdd:cd19522   1 DIADLEEAKKLLEEAVVLPMWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKYRGESEKL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 274 VRLLFELARFYAPSIIFIDEIDTLGGQRGNSGEHEASRRVKSEFLVQMDG----SQNKFDSRRVFVLAATNIPWELDEAL 349
Cdd:cd19522  81 VRLLFEMARFYAPTTIFIDEIDSICSRRGTSEEHEASRRVKSELLVQMDGvggaSENDDPSKMVMVLAATNFPWDIDEAL 160

                       170
                ....*....|
gi 17508421 350 RRRFEKRIFI 359
Cdd:cd19522 161 RRRLEKRIYI 170
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 166-436 2.34e-80

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 252.23  E-value: 2.34e-80
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 166 DASAYDAYIVQAVRGTMATNTENTMSLDDIIGMHDVKQVLHEAVTLPLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIA 243
Cdd:COG1222  51 NDANLTQKRLGTPRGTAVPAESPDVTFDDIGGLDEQIEEIREAVELPLKNPELFRkyGIEPP-KGVLLYGPPGTGKTLLA 129

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 244 RAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLFELARFYAPSIIFIDEIDTLGGQRGNSGEHEASRRVKSEFLVQMDG 323
Cdd:COG1222 130 KAVAGELGAPFIRVRGSELVSKYIGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTDDGTSGEVQRTVNQLLAELDG 209

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 324 sqnkFDSR-RVFVLAATNIPWELDEALRR--RFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGAD 400
Cdd:COG1222 210 ----FESRgDVLIIAATNRPDLLDPALLRpgRFDRVIEVPLPDEEAREEILKIHLRDMPLADDVDLDKLAKLTEGFSGAD 285

                       250       260       270
                ....*....|....*....|....*....|....*.
gi 17508421 401 VVSLCRTAAINVLRRYDTkSLRGGELTAAMESLKAE 436
Cdd:COG1222 286 LKAIVTEAGMFAIREGRD-TVTMEDLEKAIEKVKKK 320
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 53-419 1.60e-68

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 224.02  E-value: 1.60e-68
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  53 DEHDARNTFLRALEANLKLVQQNVRDEDDLHEAMTRQSGSPEPPADPDVWSKPSPPLPSSSKFGATKKGVGAAGPRPREI 132
Cdd:COG0464  18 LDDAALRLLLLLLLALAAALLLLLLLLLLLLLALLLVELLLLLLSGALAALLLLALLLLALLALLAALLSALELLLLGEL 97

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 133 SKSTSSMSTNPADVKPANPTQGILPQNSAGDSFDASAYDAYiVQAVRGTMATNTENTMSLDDIIGMHDVKQVLHEAVTLP 212
Cdd:COG0464  98 LLLLLLLLLLLLLLLDLERALLELLRESAEALALAAPLVTY-EDIGGLEEELLELREAILDDLGGLEEVKEELRELVALP 176

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 213 LLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLFELARFYAPSIIF 290
Cdd:COG0464 177 LKRPELREeyGLPPP-RGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKYVGETEKNLREVFDKARGLAPCVLF 255

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 291 IDEIDTLGGQRGNSGEHeASRRVKSEFLVQMDGsqnkfDSRRVFVLAATNIPWELDEALRRRFEKRIFIPLPDIDARKKL 370
Cdd:COG0464 256 IDEADALAGKRGEVGDG-VGRRVVNTLLTEMEE-----LRSDVVVIAATNRPDLLDPALLRRFDEIIFFPLPDAEERLEI 329

                       330       340       350       360
                ....*....|....*....|....*....|....*....|....*....
gi 17508421 371 IEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAINVLRRYDTK 419
Cdd:COG0464 330 FRIHLRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQALRLGREP 378
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 193-359 2.67e-66

ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein sorting-associated protein 4 (Vps4) is believed to be involved in intracellular protein transport out of a prevacuolar endosomal compartment. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410929 [Multi-domain]  Cd Length: 170  Bit Score: 210.49  E-value: 2.67e-66
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 193 DDIIGMHDVKQVLHEAVTLPLLVPEFFQGLRSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEK 272
Cdd:cd19521   7 EDVAGLEGAKEALKEAVILPVKFPHLFTGNRKPWSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEK 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 273 IVRLLFELARFYAPSIIFIDEIDTLGGQRGNsGEHEASRRVKSEFLVQMDGSQNkfDSRRVFVLAATNIPWELDEALRRR 352
Cdd:cd19521  87 LVKQLFAMARENKPSIIFIDEVDSLCGTRGE-GESEASRRIKTELLVQMNGVGN--DSQGVLVLGATNIPWQLDSAIRRR 163


                ....*..
gi 17508421 353 FEKRIFI 359
Cdd:cd19521 164 FEKRIYI 170
cell_div_CdvC NF041006
cell division protein CdvC;
191-471 5.41e-59

cell division protein CdvC;


Pssm-ID: 468935 [Multi-domain]  Cd Length: 371  Bit Score: 198.42  E-value: 5.41e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  191 SLDDIIGMHDVKQVLHEAVTLPLLVPEFFQgLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDS 270
Cdd:NF041006 101 TFSDIVGLEDVKEALKEAIVYPSKRPDLFP-LGWP-RGILLYGPPGCGKTMLAAAVANEIDSEFIHVDAASIMSKWLGEA 178

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  271 EKIVRLLFELARFYA-----PSIIFIDEIDTLGGQRGNSGEHEAsrRVKSEFLVQMDGSQNKFDSRRVFVLAATNIPWEL 345
Cdd:NF041006 179 EKNVAKIFKKAREKSkeegkPAIIFIDEIDALLGVYSSEVGGEV--RVRNQFLKEMDGLQDKSENYHVYVIGATNKPWRL 256

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  346 DEALRRRFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAINVLRRYDTKSLrgGE 425
Cdd:NF041006 257 DEPFLRRFQKRIYIPLPDREQRLELLKYYTSKIKLENDVDLDELAEMTEGYTASDIRDIVQAAHMRVVKEMFEKGL--GE 334

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*...
gi 17508421  426 LTA-AMEslkaelvrniDFEAALQAVSPSAGPDtMLKCKE-WCDSFGA 471
Cdd:NF041006 335 PRPiTME----------DFKEVLKIRKPSVNQE-MLKAYEaWHEKFKA 371
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 188-359 7.72e-58

ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; it may be involved in DNA double-strand break repair via homologous recombination. Caenorhabditis elegans FIGL-1 is a nuclear protein and controls the mitotic progression in the germ line and mouse FIGL-1 may be involved in the control of male meiosis. human FIGL-1 has been shown to be a centrosome protein involved in ciliogenesis perhaps as a microtubule-severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410933 [Multi-domain]  Cd Length: 186  Bit Score: 189.04  E-value: 7.72e-58
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 188 NTMSLDDIIGMHDVKQVLHEAVTLPLLVPEFFQGLRSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWR 267
Cdd:cd19525  17 PPINWADIAGLEFAKKTIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWV 96

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 268 GDSEKIVRLLFELARFYAPSIIFIDEIDTLGGQRGNsGEHEASRRVKSEFLVQMDGSQNKFDSrRVFVLAATNIPWELDE 347
Cdd:cd19525  97 GEGEKMVRALFSVARCKQPAVIFIDEIDSLLSQRGE-GEHESSRRIKTEFLVQLDGATTSSED-RILVVGATNRPQEIDE 174

                       170
                ....*....|..
gi 17508421 348 ALRRRFEKRIFI 359
Cdd:cd19525 175 AARRRLVKRLYI 186
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 193-460 1.31e-56

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 200.13  E-value: 1.31e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   193 DDIIGMHDVKQVLHEAVTLPLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDS 270
Cdd:TIGR01243 453 SDIGGLEEVKQELREAVEWPLKHPEIFEkmGIRPP-KGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGES 531

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   271 EKIVRLLFELARFYAPSIIFIDEIDTLGGQRGNSGEHEASRRVKSEFLVQMDGSQNKFDsrrVFVLAATNIPWELDEALR 350
Cdd:TIGR01243 532 EKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSN---VVVIAATNRPDILDPALL 608

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   351 R--RFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAINVLRRYDTKSLRGGELTA 428
Cdd:TIGR01243 609 RpgRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAKEKLEVG 688

                         250       260       270
                  ....*....|....*....|....*....|..
gi 17508421   429 AMESLKAELVRNIDFEAALQAVSPSAGPDTML 460
Cdd:TIGR01243 689 EEEFLKDLKVEMRHFLEALKKVKPSVSKEDML 720
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 194-359 7.97e-55

ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in microtubule dynamics; it specifically recognizes and cuts microtubules that are polyglutamylated. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410932 [Multi-domain]  Cd Length: 164  Bit Score: 180.43  E-value: 7.97e-55
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 194 DIIGMHDVKQVLHEAVTLPLLVPEFFQGLRSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKI 273
Cdd:cd19524   1 DIAGQDLAKQALQEMVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 274 VRLLFELARFYAPSIIFIDEIDTLGGQRgNSGEHEASRRVKSEFLVQMDGSQNKFDSrRVFVLAATNIPWELDEALRRRF 353
Cdd:cd19524  81 VRALFAVARELQPSIIFIDEVDSLLSER-SEGEHEASRRLKTEFLIEFDGVQSNGDD-RVLVMGATNRPQELDDAVLRRF 158


                ....*.
gi 17508421 354 EKRIFI 359
Cdd:cd19524 159 TKRVYV 164
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 193-450 1.53e-52

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 181.57  E-value: 1.53e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  193 DDIIGMHDVKQVLHEAVTLPLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDS 270
Cdd:PRK03992 131 EDIGGLEEQIREVREAVELPLKKPELFEevGIEPP-KGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIGEG 209

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  271 EKIVRLLFELARFYAPSIIFIDEIDTLGGQR---GNSGEHEASRRVkSEFLVQMDGsqnkFDSR-RVFVLAATNIPWELD 346
Cdd:PRK03992 210 ARLVRELFELAREKAPSIIFIDEIDAIAAKRtdsGTSGDREVQRTL-MQLLAEMDG----FDPRgNVKIIAATNRIDILD 284

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  347 EALRR--RFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAINVLRRydtkslrgg 424
Cdd:PRK03992 285 PAILRpgRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGMFAIRD--------- 355

                        250       260
                 ....*....|....*....|....*.
gi 17508421  425 eltaameslKAELVRNIDFEAALQAV 450
Cdd:PRK03992 356 ---------DRTEVTMEDFLKAIEKV 372
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 193-454 1.66e-50

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 183.18  E-value: 1.66e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   193 DDIIGMHDVKQVLHEAVTLPLLVPEFFQGLR-SPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSE 271
Cdd:TIGR01243 178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGiEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGESE 257

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   272 KIVRLLFELARFYAPSIIFIDEIDTLGGQRGN-SGEHEasRRVKSEFLVQMDGSQNKfdsRRVFVLAATNIPWELDEALR 350
Cdd:TIGR01243 258 ERLREIFKEAEENAPSIIFIDEIDAIAPKREEvTGEVE--KRVVAQLLTLMDGLKGR---GRVIVIGATNRPDALDPALR 332

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   351 R--RFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAINVLRRYdtksLRGGELTA 428
Cdd:TIGR01243 333 RpgRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRF----IREGKINF 408

                         250       260       270
                  ....*....|....*....|....*....|.
gi 17508421   429 AMESLKAELVRNI-----DFEAALQAVSPSA 454
Cdd:TIGR01243 409 EAEEIPAEVLKELkvtmkDFMEALKMVEPSA 439
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
192-420 6.85e-50

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 170.45  E-value: 6.85e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 192 LDDIIGMHDVKQVLHEAV--TLPLLVPEFFqGLrSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGD 269
Cdd:COG1223   1 LDDVVGQEEAKKKLKLIIkeLRRRENLRKF-GL-WPPRKILFYGPPGTGKTMLAEALAGELKLPLLTVRLDSLIGSYLGE 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 270 SEKIVRLLFELARfYAPSIIFIDEIDTLGGQRGNSGEHEASRRVKSEFLVQMDGsqnkfDSRRVFVLAATNIPWELDEAL 349
Cdd:COG1223  79 TARNLRKLFDFAR-RAPCVIFFDEFDAIAKDRGDQNDVGEVKRVVNALLQELDG-----LPSGSVVIAATNHPELLDSAL 152

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 17508421 350 RRRFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTA---AINVLRRYDTKS 420
Cdd:COG1223 153 WRRFDEVIEFPLPDKEERKEILELNLKKFPLPFELDLKKLAKKLEGLSGADIEKVLKTAlkkAILEDREKVTKE 226
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 194-359 2.71e-48

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 163.36  E-value: 2.71e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 194 DIIGMHDVKQVLHEAVTLPLLVPEFFQ--GLRSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSE 271
Cdd:cd19520   1 DIGGLDEVITELKELVILPLQRPELFDnsRLLQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSSLTDKWYGESQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 272 KIVRLLFELARFYAPSIIFIDEIDTLGGQRgNSGEHEASRRVKSEFLVQMDGSQNKFDSrRVFVLAATNIPWELDEALRR 351
Cdd:cd19520  81 KLVAAVFSLASKLQPSIIFIDEIDSFLRQR-SSTDHEATAMMKAEFMSLWDGLSTDGNC-RVIVMGATNRPQDLDEAILR 158


                ....*...
gi 17508421 352 RFEKRIFI 359
Cdd:cd19520 159 RMPKRFHI 166
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 229-361 1.34e-46

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 157.76  E-value: 1.34e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   229 MVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLFELARFYAPSIIFIDEIDTLGGQRgNSGEHE 308
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSR-GSGGDS 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 17508421   309 ASRRVKSEFLVQMDGSQNkfDSRRVFVLAATNIPWELDEALRRRFEKRIFIPL 361
Cdd:pfam00004  80 ESRRVVNQLLTELDGFTS--SNSKVIVIAATNRPDKLDPALLGRFDRIIEFPL 130
FtsH_fam TIGR01241
ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct ...
 179-419 1.50e-45

ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH. [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]


Pssm-ID: 273520 [Multi-domain]  Cd Length: 495  Bit Score: 165.54  E-value: 1.50e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   179 RGTMATNTENTMSLDDIIGMHDVKQVLHEAVTLpLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFT 256
Cdd:TIGR01241  41 KAKLLNEEKPKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTklGAKIP-KGVLLVGPPGTGKTLLAKAVAGEAGVPFFS 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   257 VSSTDLSSKWRGDSEKIVRLLFELARFYAPSIIFIDEIDTLGGQRGN--SGEHEASRRVKSEFLVQMDGsqnkFDSRR-V 333
Cdd:TIGR01241 119 ISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAglGGGNDEREQTLNQLLVEMDG----FGTNTgV 194

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   334 FVLAATNIPWELDEALRR--RFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAIN 411
Cdd:TIGR01241 195 IVIAATNRPDVLDPALLRpgRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLANLLNEAALL 274


                  ....*...
gi 17508421   412 VLRRYDTK 419
Cdd:TIGR01241 275 AARKNKTE 282
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 201-359 7.10e-44

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 151.67  E-value: 7.10e-44
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 201 VKQVLHEAVTLPLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLF 278
Cdd:cd19511   1 VKRELKEAVEWPLKHPDAFKrlGIRPP-KGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIF 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 279 ELARFYAPSIIFIDEIDTLGGQRGNSGEHEASRRVKSEFLVQMDGSQNKfdsRRVFVLAATNIPWELDEALRR--RFEKR 356
Cdd:cd19511  80 QKARQAAPCIIFFDEIDSLAPRRGQSDSSGVTDRVVSQLLTELDGIESL---KGVVVIAATNRPDMIDPALLRpgRLDKL 156


                ...
gi 17508421 357 IFI 359
Cdd:cd19511 157 IYV 159
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 201-359 3.25e-43

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 149.74  E-value: 3.25e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 201 VKQVLHEAVTLPLLVPEFFQGLRSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLFEL 280
Cdd:cd19481   1 LKASLREAVEAPRRGSRLRRYGLGLPKGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLSKYVGESEKNLRKIFER 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 281 ARFYAPSIIFIDEIDTLGGQRGNSGEHEASRRVKSEFLVQMDGSQNKfdsRRVFVLAATNIPWELDEALRR--RFEKRIF 358
Cdd:cd19481  81 ARRLAPCILFIDEIDAIGRKRDSSGESGELRRVLNQLLTELDGVNSR---SKVLVIAATNRPDLLDPALLRpgRFDEVIE 157


                .
gi 17508421 359 I 359
Cdd:cd19481 158 F 158
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 194-359 3.35e-43

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 150.13  E-value: 3.35e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 194 DIIGMHDVKQVLHEAVTLPLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSE 271
Cdd:cd19503   1 DIGGLDEQIASLKELIELPLKYPELFRalGLKPP-RGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKYLGESE 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 272 KIVRLLFELARFYAPSIIFIDEIDTLGGQRGNSGeHEASRRVKSEFLVQMDGSQNKfdsRRVFVLAATNIPWELDEALRR 351
Cdd:cd19503  80 KNLREIFEEARSHAPSIIFIDEIDALAPKREEDQ-REVERRVVAQLLTLMDGMSSR---GKVVVIAATNRPDAIDPALRR 155

                       170
                ....*....|
gi 17508421 352 --RFEKRIFI 359
Cdd:cd19503 156 pgRFDREVEI 165
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 191-414 7.74e-41

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 151.46  E-value: 7.74e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  191 SLDDIIGMHDVKQVLHEAVTLPLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRG 268
Cdd:PTZ00361 181 SYADIGGLEQQIQEIKEAVELPLTHPELYDdiGIKPP-KGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLG 259

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  269 DSEKIVRLLFELARFYAPSIIFIDEIDTLGGQR--GNSGEHEASRRVKSEFLVQMDGsqnkFDSRR-VFVLAATNIPWEL 345
Cdd:PTZ00361 260 DGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRydATSGGEKEIQRTMLELLNQLDG----FDSRGdVKVIMATNRIESL 335

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 17508421  346 DEALRR--RFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAINVLR 414
Cdd:PTZ00361 336 DPALIRpgRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALR 406
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 201-359 3.14e-39

second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ATPase domains; The Valosin-containing protein-like ATPase of Thermoplasma acidophilum (VAT), is an archaeal homolog of the ubiquitous Cdc48/p97. It is a protein unfoldase that functions in concert with the 20S proteasome by unfolding proteasome substrates and passing them on for degradation. VAT forms a homohexamer, each monomer contains two tandem ATPase domains, referred to as D1 and D2, and an N-terminal domain. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410937 [Multi-domain]  Cd Length: 159  Bit Score: 139.17  E-value: 3.14e-39
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 201 VKQVLHEAVTLPLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLF 278
Cdd:cd19529   1 VKQELKEAVEWPLLKPEVFKrlGIRPP-KGILLYGPPGTGKTLLAKAVATESNANFISVKGPELLSKWVGESEKAIREIF 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 279 ELARFYAPSIIFIDEIDTLGGQRGNSGEHEASRRVKSEFLVQMDGSQnkfDSRRVFVLAATNIPWELDEALRR--RFEKR 356
Cdd:cd19529  80 RKARQVAPCVIFFDEIDSIAPRRGTTGDSGVTERVVNQLLTELDGLE---EMNGVVVIAATNRPDIIDPALLRagRFDRL 156


                ...
gi 17508421 357 IFI 359
Cdd:cd19529 157 IYI 159
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 191-357 2.02e-38

proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily contains ATPase subunits of the eukaryotic 26S proteasome, and of the archaeal proteasome which carry out ATP-dependent degradation of substrates of the ubiquitin-proteasome pathway. The eukaryotic 26S proteasome consists of a proteolytic 20S core particle (CP), and a 19S regulatory particle (RP) which provides the ATP-dependence and the specificity for ubiquitinated proteins. In the archaea the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). This subfamily also includes various eukaryotic 26S subunits including, proteasome 26S subunit, ATPase 2 (PSMC2, also known as S7 and MSS1) which is a member of the 19S RP and has a chaperone like activity; and proteasome 20S subunit alpha 6 (PSMA6, also known as IOTA, p27K, and PROS27) which is a member of the 20S CP. This RecA-like_PAN subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410910 [Multi-domain]  Cd Length: 171  Bit Score: 137.47  E-value: 2.02e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 191 SLDDIIGMHDVKQVLHEAVTLPLLVPEFFQGLR-SPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGD 269
Cdd:cd19502   1 TYEDIGGLDEQIREIREVVELPLKHPELFEELGiEPPKGVLLYGPPGTGKTLLAKAVANHTDATFIRVVGSELVQKYIGE 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 270 SEKIVRLLFELARFYAPSIIFIDEIDTLGGQR---GNSGEHEASRRVkSEFLVQMDGsqnkFDSR-RVFVLAATNIPWEL 345
Cdd:cd19502  81 GARLVRELFEMAREKAPSIIFIDEIDAIGAKRfdsGTGGDREVQRTM-LELLNQLDG----FDPRgNIKVIMATNRPDIL 155

                       170
                ....*....|....
gi 17508421 346 DEALRR--RFEKRI 357
Cdd:cd19502 156 DPALLRpgRFDRKI 169
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 194-415 6.64e-37

26S protease regulatory subunit 6B-like protein; Provisional


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 139.90  E-value: 6.64e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  194 DIIGMHDVKQVLHEAVTLPLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSE 271
Cdd:PTZ00454 146 DIGGLDIQKQEIREAVELPLTCPELYEqiGIDPP-RGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKYLGEGP 224

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  272 KIVRLLFELARFYAPSIIFIDEIDTLGGQR--GNSGEHEASRRVKSEFLVQMDGsqnkFD-SRRVFVLAATNIPWELDEA 348
Cdd:PTZ00454 225 RMVRDVFRLARENAPSIIFIDEVDSIATKRfdAQTGADREVQRILLELLNQMDG----FDqTTNVKVIMATNRADTLDPA 300

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 17508421  349 LRR--RFEKRIFIPLPDiDARKKLIEKSMegTPK---SDEINYDDLAARTEGFSGADVVSLCRTAAINVLRR 415
Cdd:PTZ00454 301 LLRpgRLDRKIEFPLPD-RRQKRLIFQTI--TSKmnlSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRK 369
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
179-447 8.40e-37

ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 142.48  E-value: 8.40e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 179 RGTMATNTENTMSLDDIIGMHDVKQVLHEAVTLpLLVPEFFQGL--RSPwKAMVLAGPPGTGKTLIARAIASESsstfft 256
Cdd:COG0465 128 KAKLYDEDKPKVTFDDVAGVDEAKEELQEIVDF-LKDPEKFTRLgaKIP-KGVLLVGPPGTGKTLLAKAVAGEA------ 199

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 257 vsstdlsskwrG-------DSEKI----------VRLLFELARFYAPSIIFIDEIDTLGGQRG--NSGEHEasrrvksE- 316
Cdd:COG0465 200 -----------GvpffsisGSDFVemfvgvgasrVRDLFEQAKKNAPCIIFIDEIDAVGRQRGagLGGGHD-------Er 261

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 317 ------FLVQMDGsqnkFDSR-RVFVLAATNIPWELDEALRR--RFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYD 387
Cdd:COG0465 262 eqtlnqLLVEMDG----FEGNeGVIVIAATNRPDVLDPALLRpgRFDRQVVVDLPDVKGREAILKVHARKKPLAPDVDLE 337

                       250       260       270       280       290       300
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 388 DLAARTEGFSGADVVSLCRTAAINVLRRydtkslrggeltaameslKAELVRNIDFEAAL 447
Cdd:COG0465 338 VIARRTPGFSGADLANLVNEAALLAARR------------------NKKAVTMEDFEEAI 379
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 191-359 1.23e-35

ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. It is anchored to the cytoplasmic membrane such that the amino- and carboxy-termini are exposed to the cytoplasm. It presents a membrane-bound hexameric structure that is able to unfold and degrade protein substrates. It is comprised of an N-terminal transmembrane region and the larger C-terminal cytoplasmic region, which consists of an ATPase domain and a protease domain. This RecA-Like FTsH subfamily represents the ATPase domain, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410909 [Multi-domain]  Cd Length: 171  Bit Score: 130.04  E-value: 1.23e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 191 SLDDIIGMHDVKQVLHEAVTLpLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRG 268
Cdd:cd19501   2 TFKDVAGCEEAKEELKEVVEF-LKNPEKFTklGAKIP-KGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVG 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 269 DSEKIVRLLFELARFYAPSIIFIDEIDTLGGQRG--NSGEHEASRRVKSEFLVQMDGsqnkFDSRR-VFVLAATNIPWEL 345
Cdd:cd19501  80 VGASRVRDLFEQAKKNAPCIVFIDEIDAVGRKRGagLGGGHDEREQTLNQLLVEMDG----FESNTgVIVIAATNRPDVL 155

                       170
                ....*....|....*.
gi 17508421 346 DEALRR--RFEKRIFI 359
Cdd:cd19501 156 DPALLRpgRFDRQVYV 171
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
179-414 4.59e-35

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 138.24  E-value: 4.59e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  179 RGTMATNTENTMSLDDIIGMHDVKQVLHEAVTLpLLVPEFFQGL--RSPwKAMVLAGPPGTGKTLIARAIASESSSTFFT 256
Cdd:PRK10733 138 KARMLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLggKIP-KGVLMVGPPGTGKTLLAKAIAGEAKVPFFT 215

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  257 VSSTDLSSKWRGDSEKIVRLLFELARFYAPSIIFIDEIDTLGGQRGN--SGEHEASRRVKSEFLVQMDGSQNkfdSRRVF 334
Cdd:PRK10733 216 ISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAglGGGHDEREQTLNQMLVEMDGFEG---NEGII 292

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  335 VLAATNIPWELDEALRR--RFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAINV 412
Cdd:PRK10733 293 VIAATNRPDVLDPALLRpgRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFA 372


                 ..
gi 17508421  413 LR 414
Cdd:PRK10733 373 AR 374
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 194-360 5.18e-35

first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r1-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410927 [Multi-domain]  Cd Length: 166  Bit Score: 128.32  E-value: 5.18e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 194 DIIGMHDVKQVLHEAVTLPLLVPEFFQGLR-SPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEK 272
Cdd:cd19519   1 DIGGCRKQLAQIREMVELPLRHPELFKAIGiKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESES 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 273 IVRLLFELARFYAPSIIFIDEIDTLGGQRGNSgEHEASRRVKSEFLVQMDGSQNKfdsRRVFVLAATNIPWELDEALRR- 351
Cdd:cd19519  81 NLRKAFEEAEKNAPAIIFIDEIDAIAPKREKT-HGEVERRIVSQLLTLMDGLKQR---AHVIVMAATNRPNSIDPALRRf 156

                       170
                ....*....|
gi 17508421 352 -RFEKRIFIP 360
Cdd:cd19519 157 gRFDREIDIG 166
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 201-359 1.19e-34

second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP in metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the second of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r2-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410936 [Multi-domain]  Cd Length: 161  Bit Score: 127.24  E-value: 1.19e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 201 VKQVLHEAVTLPLLVPEFFQ--GLrSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLF 278
Cdd:cd19528   1 VKRELQELVQYPVEHPDKFLkfGM-TPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVRDIF 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 279 ELARFYAPSIIFIDEIDTLGGQRGNS--GEHEASRRVKSEFLVQMDGSQNKfdsRRVFVLAATNIPWELDEALRR--RFE 354
Cdd:cd19528  80 DKARAAAPCVLFFDELDSIAKARGGNigDAGGAADRVINQILTEMDGMNTK---KNVFIIGATNRPDIIDPAILRpgRLD 156


                ....*
gi 17508421 355 KRIFI 359
Cdd:cd19528 157 QLIYI 161
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 194-357 4.75e-34

first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410926 [Multi-domain]  Cd Length: 169  Bit Score: 125.59  E-value: 4.75e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 194 DIIGMHDVKQVLHEAVTLPLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSE 271
Cdd:cd19518   1 DIGGMDSTLKELCELLIHPILPPEYFQhlGVEPP-RGVLLHGPPGCGKTMLANAIAGELKVPFLKISATEIVSGVSGESE 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 272 KIVRLLFELARFYAPSIIFIDEIDTLGGQRgNSGEHEASRRVKSEFLVQMDG-SQNKFDSRRVFVLAATNIPWELDEALR 350
Cdd:cd19518  80 EKIRELFDQAISNAPCIVFIDEIDAITPKR-ESAQREMERRIVSQLLTCMDElNNEKTAGGPVLVIGATNRPDSLDPALR 158


                ....*....
gi 17508421 351 R--RFEKRI 357
Cdd:cd19518 159 RagRFDREI 167
ftsH CHL00176
cell division protein; Validated
 191-415 9.77e-34

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 134.41  E-value: 9.77e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  191 SLDDIIGMHDVKQVLHEAVTLpLLVPEFFQGL-RSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGD 269
Cdd:CHL00176 181 TFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVgAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGV 259

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  270 SEKIVRLLFELARFYAPSIIFIDEIDTLGGQRGN--SGEHEASRRVKSEFLVQMDGsqnkFDSRR-VFVLAATNIPWELD 346
Cdd:CHL00176 260 GAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAgiGGGNDEREQTLNQLLTEMDG----FKGNKgVIVIAATNRVDILD 335

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 17508421  347 EALRR--RFEKRIFIPLPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAINVLRR 415
Cdd:CHL00176 336 AALLRpgRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAILTARR 406
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 194-359 6.03e-33

ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410931 [Multi-domain]  Cd Length: 163  Bit Score: 122.69  E-value: 6.03e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 194 DIIGMHDVKQVLHEAVTLPLLVPEFFQGLRSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKI 273
Cdd:cd19523   1 DIAGLGALKAAIKEEVLWPLLRPDAFSGLLRLPRSILLFGPRGTGKTLLGRCLASQLGATFLRLRGSTLVAKWAGEGEKI 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 274 VRLLFELARFYAPSIIFIDEIDTLGGQRGNsgEHEASRRVKSEFLVQMDGSQNKfDSRRVFVLAATNIPWELDEALRRRF 353
Cdd:cd19523  81 LQASFLAARCRQPSVLFISDLDALLSSQDD--EASPVGRLQVELLAQLDGVLGS-GEDGVLVVCTTSKPEEIDESLRRYF 157


                ....*.
gi 17508421 354 EKRIFI 359
Cdd:cd19523 158 SKRLLV 163
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 194-358 1.92e-32

ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces cerevisiae Yta7 is a chromatin-associated AAA-ATPase involved in regulation of chromatin dynamics. Its human ortholog ANCCA/ATAD2 transcriptionally activates pathways of malignancy in a broad range of cancers. The RecA-like_Yta7 subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410925 [Multi-domain]  Cd Length: 170  Bit Score: 121.46  E-value: 1.92e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 194 DIIGMHDVKQVLHEAVTLPLLVPEFFQGLR-SPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVS-----STDLSSKWR 267
Cdd:cd19517   1 DIGGLSHYINQLKEMVFFPLLYPEVFAKFKiTPPRGVLFHGPPGTGKTLMARALAAECSKGGQKVSffmrkGADCLSKWV 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 268 GDSEKIVRLLFELARFYAPSIIFIDEIDTLGGQRGNSGEHEASRRVkSEFLVQMDGsqnkFDSR-RVFVLAATNIPWELD 346
Cdd:cd19517  81 GEAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVRSSKQEQIHASIV-STLLALMDG----LDNRgQVVVIGATNRPDALD 155

                       170
                ....*....|....
gi 17508421 347 EALRR--RFEKRIF 358
Cdd:cd19517 156 PALRRpgRFDREFY 169
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 200-359 2.00e-29

second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410938 [Multi-domain]  Cd Length: 161  Bit Score: 112.97  E-value: 2.00e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 200 DVKQVLHEAVTLPLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLL 277
Cdd:cd19530   3 HVREELTMSILRPIKRPDIYKalGIDLP-TGVLLYGPPGCGKTLLAKAVANESGANFISVKGPELLNKYVGESERAVRQV 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 278 FELARFYAPSIIFIDEIDTLGGQRGNsGEHEASRRVKSEFLVQMDGSQnkfDSRRVFVLAATNIPWELDEALRR--RFEK 355
Cdd:cd19530  82 FQRARASAPCVIFFDEVDALVPKRGD-GGSWASERVVNQLLTEMDGLE---ERSNVFVIAATNRPDIIDPAMLRpgRLDK 157


                ....
gi 17508421 356 RIFI 359
Cdd:cd19530 158 TLYV 161
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 201-359 1.54e-28

second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as Peroxin61)/PEX1 is a protein unfoldase; PEX6 and PEX1 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. This subfamily represents the second ATPase domain of PEX6. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410935 [Multi-domain]  Cd Length: 160  Bit Score: 110.30  E-value: 1.54e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 201 VKQVLHEAVTLPLLVPEFF-QGLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLFE 279
Cdd:cd19527   1 VKKEILDTIQLPLEHPELFsSGLRKR-SGILLYGPPGTGKTLLAKAIATECSLNFLSVKGPELINMYIGESEANVREVFQ 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 280 LARFYAPSIIFIDEIDTLGGQRGNSGEHEASR-RVKSEFLVQMDGSQNKFDSrrVFVLAATNIPWELDEALRR--RFEKR 356
Cdd:cd19527  80 KARDAKPCVIFFDELDSLAPSRGNSGDSGGVMdRVVSQLLAELDGMSSSGQD--VFVIGATNRPDLLDPALLRpgRFDKL 157


                ...
gi 17508421 357 IFI 359
Cdd:cd19527 158 LYL 160
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 201-358 9.84e-27

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 105.59  E-value: 9.84e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 201 VKQVLHEAVTLPLLVPEFFQ--GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLF 278
Cdd:cd19526   1 VKKALEETIEWPSKYPKIFAssPLRLR-SGILLYGPPGCGKTLLASAIASECGLNFISVKGPELLNKYIGASEQNVRDLF 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 279 ELARFYAPSIIFIDEIDTLGGQRG--NSGeheASRRVKSEFLVQMDGSQNkfdSRRVFVLAATNIPWELDEALRR--RFE 354
Cdd:cd19526  80 SRAQSAKPCILFFDEFDSIAPKRGhdSTG---VTDRVVNQLLTQLDGVEG---LDGVYVLAATSRPDLIDPALLRpgRLD 153


                ....
gi 17508421 355 KRIF 358
Cdd:cd19526 154 KLVY 157
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 196-361 8.70e-21

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 88.74  E-value: 8.70e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 196 IGMHDVKQVLHEAVTLPllvpeffqglrsPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSS---KWRGDSEK 272
Cdd:cd00009   1 VGQEEAIEALREALELP------------PPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDlleGLVVAELF 68

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 273 ---IVRLLFELARFYAPSIIFIDEIDTLggqrgnsgeheaSRRVKSEFLVQMD-GSQNKFDSRRVFVLAATNIPWE--LD 346
Cdd:cd00009  69 ghfLVRLLFELAEKAKPGVLFIDEIDSL------------SRGAQNALLRVLEtLNDLRIDRENVRVIGATNRPLLgdLD 136

                       170
                ....*....|....*
gi 17508421 347 EALRRRFEKRIFIPL 361
Cdd:cd00009 137 RALYDRLDIRIVIPL 151
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 221-359 1.31e-16

ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of photosynthesis in cyanobacteria, especially in CO2 uptake and utilization. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410915 [Multi-domain]  Cd Length: 161  Bit Score: 77.02  E-value: 1.31e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 221 GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLFELARFYAPSIIFIDEIDTLGGQ 300
Cdd:cd19507  27 GLPTP-KGLLLVGIQGTGKSLTAKAIAGVWQLPLLRLDMGRLFGGLVGESESRLRQMIQTAEAIAPCVLWIDEIEKGFSN 105

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 17508421 301 RGNSGEHEASRRVKSEFLVQMdgsQNKfdSRRVFVLAATN----IPWELdeaLRR-RFEKRIFI 359
Cdd:cd19507 106 ADSKGDSGTSSRVLGTFLTWL---QEK--KKPVFVVATANnvqsLPPEL---LRKgRFDEIFFV 161
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 225-363 1.45e-16

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 76.64  E-value: 1.45e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421    225 PWKAMVLAGPPGTGKTLIARAIA-----------------SESSSTFFTVSSTDLSSKWRGDSEKIVRLLFELARFYAPS 287
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALArelgppgggviyidgedILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPD 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 17508421    288 IIFIDEIDTLggqrgnsgeHEASRRVKSEFLVQMDGSQNKFDSRRVFVLAATNIPWELDEA-LRRRFEKRIFIPLPD 363
Cdd:smart00382  81 VLILDEITSL---------LDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPAlLRRRFDRRIVLLLIL 148
ycf46 CHL00195
Ycf46; Provisional
 221-401 3.29e-16

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 80.83  E-value: 3.29e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  221 GLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRLLFELARFYAPSIIFIDEIDTLGGQ 300
Cdd:CHL00195 255 GLPTP-RGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSN 333

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  301 RGNSGEHEASRRVKSEFLVQMdgSQNKfdsRRVFVLA-ATNIPWELDEALRR-RFEKRIFIPLPDIDARKKLIE-KSMEG 377
Cdd:CHL00195 334 SESKGDSGTTNRVLATFITWL--SEKK---SPVFVVAtANNIDLLPLEILRKgRFDEIFFLDLPSLEEREKIFKiHLQKF 408

                        170       180
                 ....*....|....*....|....*
gi 17508421  378 TPKS-DEINYDDLAARTEGFSGADV 401
Cdd:CHL00195 409 RPKSwKKYDIKKLSKLSNKFSGAEI 433
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 227-359 5.58e-13

first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410912 [Multi-domain]  Cd Length: 177  Bit Score: 67.13  E-value: 5.58e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 227 KAMVLAGPPGTGKTLIARAIASESSSTF-FTVSSTDLSSKWRGDSEKIVRLLF-----ELARFYAPS---IIFIDEIDTL 297
Cdd:cd19504  36 KGILLYGPPGTGKTLMARQIGKMLNAREpKIVNGPEILNKYVGESEANIRKLFadaeeEQRRLGANSglhIIIFDEIDAI 115

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 17508421 298 GGQRG----NSGEHEAsrrVKSEFLVQMDGSQNkfdSRRVFVLAATNIPWELDEALRR--RFEKRIFI 359
Cdd:cd19504 116 CKQRGsmagSTGVHDT---VVNQLLSKIDGVEQ---LNNILVIGMTNRKDLIDEALLRpgRLEVQMEI 177
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 383-415 2.58e-09

AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.


Pssm-ID: 465537 [Multi-domain]  Cd Length: 45  Bit Score: 52.54  E-value: 2.58e-09
                          10        20        30
                  ....*....|....*....|....*....|...
gi 17508421   383 EINYDDLAARTEGFSGADVVSLCRTAAINVLRR 415
Cdd:pfam17862   1 DVDLEELAERTEGFSGADLEALCREAALAALRR 33
RecA-like_ATAD3-like cd19512
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ...
 223-357 5.16e-09

ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase domains; ATPase AAA-domain protein 3 (ATAD3) is a ubiquitously expressed mitochondrial protein involved in mitochondrial dynamics, DNA-nucleoid structural organization, cholesterol transport and steroidogenesis. The ATAD3 gene family in human comprises three paralog genes: ATAD3A, ATAD3B and ATAD3C. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410920 [Multi-domain]  Cd Length: 150  Bit Score: 54.84  E-value: 5.16e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 223 RSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDSEKIVRlLFELARFYAPS-IIFIDEIDTLGGQR 301
Cdd:cd19512  19 KGLYRNILFYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAPMGREGVTAIHK-VFDWANTSRRGlLLFVDEADAFLRKR 97

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 17508421 302 GNSGEHEASRRVKSEFLVQMDGSQNKFdsrrVFVLaATNIPWELDEALRRRFEKRI 357
Cdd:cd19512  98 STEKISEDLRAALNAFLYRTGEQSNKF----MLVL-ASNQPEQFDWAINDRIDEMV 148
RecA-like_IQCA1 cd19506
ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein ...
 200-357 5.39e-08

ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein regulatory complex subunit 11, DRC11 and IQCA) is an ATPase subunit of the nexin-dynein regulatory complex (N-DRC). The 9 + 2 axoneme of most motile cilia and flagella consists of nine outer doublet microtubules arranged in a ring surrounding a central pair of two singlet microtubules. The N-DRC complex maintains alignment between outer doublet microtubules and limits microtubule sliding in motile axonemes. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410914 [Multi-domain]  Cd Length: 160  Bit Score: 52.14  E-value: 5.39e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 200 DVKQVLHEAVTLPLLVPEFFQglRSPW-KAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKWRGDS--EKIVRL 276
Cdd:cd19506   1 DVRQLLTLYGILPLGSQAVHE--KAPLvKSLLLAGPSGVGKKMLVHAICTETGANLFNLSPSNIAGKYPGKNglQMMLHL 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 277 LFELARFYAPSIIFIDEID-TLGGQRGNSGEHEASRRVKSEfLVQMDGSQNKFDsrRVFVLAATNIPWELDEALRRRFEK 355
Cdd:cd19506  79 VLKVARQLQPSVIWIGDAEkTFYKKVPKTEKQLDPKRLKKD-LPKILKSLKPED--RVLIVGTTSRPFEADLKSFCKVYN 155


                ..
gi 17508421 356 RI 357
Cdd:cd19506 156 KI 157
T7SS_EccA TIGR03922
type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ...
 192-357 2.78e-06

type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the actinobacterial flavor of type VII secretion systems. Species such as Mycobacterium tuberculosis have several instances of this system per genome, designated EccA1, EccA2, etc. [Protein fate, Protein and peptide secretion and trafficking]


Pssm-ID: 188437 [Multi-domain]  Cd Length: 557  Bit Score: 49.84  E-value: 2.78e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   192 LDDIIGMHDVKQ---VLHEAVTLPLLVPEffQGLRSPWKA--MVLAGPPGTGKTLIARAIASE-------SSSTFFTVSS 259
Cdd:TIGR03922 275 LAEQIGLERVKRqvaALKSSTAMALARAE--RGLPVAQTSnhMLFAGPPGTGKTTIARVVAKIycglgvlRKPLVREVSR 352

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   260 TDLSSKWRGDSEKIVRLLFELArfyAPSIIFIDEIDTLgGQRGNSGEHEASRRVKSEFLVQMDGSQNKFdsrrVFVLA-- 337
Cdd:TIGR03922 353 ADLIGQYIGESEAKTNEIIDSA---LGGVLFLDEAYTL-VETGYGQKDPFGLEAIDTLLARMENDRDRL----VVIGAgy 424

                         170       180
                  ....*....|....*....|..
gi 17508421   338 --ATNIPWELDEALRRRFEKRI 357
Cdd:TIGR03922 425 rkDLDKFLEVNEGLRSRFTRVI 446
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 227-359 8.31e-06

ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as Thyroid hormone receptor interactor 13 (TRIP13) and 16E1BP) is a key regulator of specific chromosomal events, like the control of G2/prophase processes such as DNA break formation and recombination, checkpoint signaling, and chromosome synapsis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion


Pssm-ID: 410916 [Multi-domain]  Cd Length: 199  Bit Score: 46.67  E-value: 8.31e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 227 KAMVLAGPPGTGKTLIARAIASESSSTFFTV---------SSTDLSSKWRGDSEKIVRLLF----ELARFYAPSI-IFID 292
Cdd:cd19508  53 RLVLLHGPPGTGKTSLCKALAQKLSIRLSSRyrygqlieiNSHSLFSKWFSESGKLVTKMFqkiqELIDDKDALVfVLID 132

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 293 EIDTLGGQRGNS---GEHEASRRVKSEFLVQMDgSQNKFDSrrVFVLAATNIPWELDEALRRRFEKRIFI 359
Cdd:cd19508 133 EVESLAAARSASssgTEPSDAIRVVNAVLTQID-RIKRYHN--NVILLTSNLLEKIDVAFVDRADIKQYI 199
AAA_2 pfam07724
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ...
 231-295 4.11e-05

AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400187 [Multi-domain]  Cd Length: 168  Bit Score: 44.11  E-value: 4.11e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 17508421   231 LAGPPGTGKTLIARAIASESSSTFFTVSSTDLS--------SKWRGDSEKIVR-----LLFELARFYAPSIIFIDEID 295
Cdd:pfam07724   8 FLGPTGVGKTELAKALAELLFGDERALIRIDMSeymeehsvSRLIGAPPGYVGyeeggQLTEAVRRKPYSIVLIDEIE 85
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 225-359 9.04e-05

Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of mitochondrial respiratory chain complex III and plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex. RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410918 [Multi-domain]  Cd Length: 153  Bit Score: 42.72  E-value: 9.04e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 225 PWK-AMVLAGPPGTGKTLIARAIASEssstfFTVSSTDLSSKWRGDSEKIVRLLfeLARFYAPSIIFIDEIDTlggqRGN 303
Cdd:cd19510  21 PYRrGYLLYGPPGTGKSSFIAALAGE-----LDYDICDLNLSEVVLTDDRLNHL--LNTAPKQSIILLEDIDA----AFE 89

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 17508421 304 SGEHEASRRVKSEFL--VQMDGSQNKFDS-----RRVFVLaATNIPWELDEALRR--RFEKRIFI 359
Cdd:cd19510  90 SREHNKKNPSAYGGLsrVTFSGLLNALDGvasseERIVFM-TTNHIERLDPALIRpgRVDMKIYM 153
MoxR COG0714
MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ...
 233-366 3.12e-04

MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway/BioSystem: Cobalamine/B12 biosynthesis


Pssm-ID: 440478 [Multi-domain]  Cd Length: 292  Bit Score: 42.46  E-value: 3.12e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 233 GPPGTGKTLIARAIASessstfftvsSTDLSSK----------------W---RGDSEKIVRL--LFElarfyapSIIFI 291
Cdd:COG0714  38 GVPGVGKTTLAKALAR----------ALGLPFIriqftpdllpsdilgtYiydQQTGEFEFRPgpLFA-------NVLLA 100

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 292 DEIDtlggqRgnsgeheASRRVKS-------EFLVQMDGSQNKFDsRRVFVLAATNIP-----WELDEALRRRFEKRIFI 359
Cdd:COG0714 101 DEIN-----R-------APPKTQSalleameERQVTIPGGTYKLP-EPFLVIATQNPIeqegtYPLPEAQLDRFLLKLYI 167


                ....*..
gi 17508421 360 PLPDIDA 366
Cdd:COG0714 168 GYPDAEE 174
PRK04195 PRK04195
replication factor C large subunit; Provisional
 191-249 3.28e-04

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 42.99  E-value: 3.28e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 17508421  191 SLDDIIGMHDVKQVLHEAVTlpllvpEFFQGlrSPWKAMVLAGPPGTGKTLIARAIASE 249
Cdd:PRK04195  12 TLSDVVGNEKAKEQLREWIE------SWLKG--KPKKALLLYGPPGVGKTSLAHALAND 62
RecA-like_HslU cd19498
ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease ...
 195-324 3.30e-04

ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease HslVU. In HslVU, HslU ATPase serves to unfold and translocate protein substrate, and the HslV protease degrades the unfolded proteins. This RecA-like_HslU subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410906 [Multi-domain]  Cd Length: 183  Bit Score: 41.60  E-value: 3.30e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 195 IIGMHDVKQvlheAVTLPL-------LVPEFFQGLRSPwKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSS-KW 266
Cdd:cd19498  13 IIGQDEAKR----AVAIALrnrwrrmQLPEELRDEVTP-KNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEvGY 87

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 267 RG-DSEKIVRLLFElarfyapSIIFIDEIDTLGGQRGNSGeHEASRR-VKSEFLVQMDGS 324
Cdd:cd19498  88 VGrDVESIIRDLVE-------GIVFIDEIDKIAKRGGSSG-PDVSREgVQRDLLPIVEGS 139
clpC CHL00095
Clp protease ATP binding subunit
 230-355 3.70e-04

Clp protease ATP binding subunit


Pssm-ID: 214361 [Multi-domain]  Cd Length: 821  Bit Score: 43.12  E-value: 3.70e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  230 VLAGPPGTGKTLIARAIASESSSTFFTVSSTD------------LSSKWRGDSEKIVRLLFELARFYAPSIIFIDEIDTL 297
Cdd:CHL00095 204 ILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDklvitldiglllAGTKYRGEFEERLKRIFDEIQENNNIILVIDEVHTL 283

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 17508421  298 GGQRGNSGEHEASRRVKsEFLvqmdgSQNKFDsrrvfVLAATNIPW-----ELDEALRRRFEK 355
Cdd:CHL00095 284 IGAGAAEGAIDAANILK-PAL-----ARGELQ-----CIGATTLDEyrkhiEKDPALERRFQP 335
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 229-294 6.85e-04

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 41.99  E-value: 6.85e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 17508421  229 MVLAGPPGTGKTLIARAIASEssstfftvsstdLSSKWRG-----DSEKIVRLLFELARFYAPS----IIFIDEI 294
Cdd:PRK13342  39 MILWGPPGTGKTTLARIIAGA------------TDAPFEAlsavtSGVKDLREVIEEARQRRSAgrrtILFIDEI 101
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 229-249 6.85e-04

Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, recombination and repair];


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 41.97  E-value: 6.85e-04
                        10        20
                ....*....|....*....|.
gi 17508421 229 MVLAGPPGTGKTLIARAIASE 249
Cdd:COG2256  52 MILWGPPGTGKTTLARLIANA 72
clpA PRK11034
ATP-dependent Clp protease ATP-binding subunit; Provisional
 230-371 9.27e-04

ATP-dependent Clp protease ATP-binding subunit; Provisional


Pssm-ID: 236828 [Multi-domain]  Cd Length: 758  Bit Score: 41.75  E-value: 9.27e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  230 VLAGPPGTGKTLIARAIASESSSTFFTVSSTDLS------------SKWRGDSEKIVRLLFELARFYAPSIIFIDEIDT- 296
Cdd:PRK11034 211 LLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTiysldigsllagTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTi 290

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421  297 LGGQRGNSGEHEASRRVKSeflvqmdgsqnKFDSRRVFVLAAT------NIpWELDEALRRRFEKrIFIPLPDIDARKKL 370
Cdd:PRK11034 291 IGAGAASGGQVDAANLIKP-----------LLSSGKIRVIGSTtyqefsNI-FEKDRALARRFQK-IDITEPSIEETVQI 357


                 .
gi 17508421  371 I 371
Cdd:PRK11034 358 I 358
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 191-298 3.38e-03

Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 39.59  E-value: 3.38e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   191 SLDDIIGMHDVKQVLHeavtlplLVPEFFQGLRSPWKAMVLAGPPGTGKTLIARAIASEssstfftvsstdLSSKWRGDS 270
Cdd:TIGR00635   2 LLAEFIGQEKVKEQLQ-------LFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANE------------MGVNLKITS 62

                          90       100       110
                  ....*....|....*....|....*....|..
gi 17508421   271 ----EKIVRLLFELARFYAPSIIFIDEIDTLG 298
Cdd:TIGR00635  63 gpalEKPGDLAAILTNLEEGDVLFIDEIHRLS 94
TIP49 pfam06068
TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and ...
 227-249 3.48e-03

TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases.


Pssm-ID: 399217 [Multi-domain]  Cd Length: 347  Bit Score: 39.60  E-value: 3.48e-03
                          10        20
                  ....*....|....*....|...
gi 17508421   227 KAMVLAGPPGTGKTLIARAIASE 249
Cdd:pfam06068  51 RAVLIAGPPGTGKTALAIAISKE 73
RecA-like_Lon cd19500
lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an ...
 193-362 3.49e-03

lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an evolutionarily conserved ATP-dependent serine protease, present in bacteria and eukaryotic mitochondria and peroxisomes, which mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Lon protease is both an ATP-dependent peptidase and a protein-activated ATPase. This RecA-like Lon domain subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410908 [Multi-domain]  Cd Length: 182  Bit Score: 38.31  E-value: 3.49e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 193 DDIIGMHDVKQVLHE--AVtlpllvpeffQGLRSPWKAMVL--AGPPGTGKTLIARAIASEssstfftvsstdLSSKW-- 266
Cdd:cd19500  10 ADHYGLEDVKERILEylAV----------RKLKGSMKGPILclVGPPGVGKTSLGKSIARA------------LGRKFvr 67

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 267 ------RGDSE--------------KIVRLLFElARFYAPsIIFIDEIDTLGgqRGNSGEHEASrrvkseFLVQMDGSQN 326
Cdd:cd19500  68 islggvRDEAEirghrrtyvgampgRIIQALKK-AGTNNP-VFLLDEIDKIG--SSFRGDPASA------LLEVLDPEQN 137

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*.
gi 17508421 327 K----------FDSRRVFVLAATNIPWELDEALRRRFEkriFIPLP 362
Cdd:cd19500 138 StfsdhyldvpFDLSKVLFIATANSLDTIPGPLLDRME---IIELS 180
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
227-249 4.73e-03

DNA helicase TIP49, TBP-interacting protein [Transcription];


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 39.18  E-value: 4.73e-03
                        10        20
                ....*....|....*....|...
gi 17508421 227 KAMVLAGPPGTGKTLIARAIASE 249
Cdd:COG1224  65 KGILIVGPPGTGKTALAVAIARE 87
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 229-353 5.20e-03

AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400191 [Multi-domain]  Cd Length: 135  Bit Score: 37.27  E-value: 5.20e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421   229 MVLAGPPGTGKTLIARAIAS-------ESSSTFFTVSSTDLSSKWRGDSEKIVRLLFELARFYAPS-IIFIDEIDtlggq 300
Cdd:pfam07728   2 VLLVGPPGTGKTELAERLAAalsnrpvFYVQLTRDTTEEDLFGRRNIDPGGASWVDGPLVRAAREGeIAVLDEIN----- 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 17508421   301 RGNSgehEASRRVKS-----EFLVQMDGSQNKFDSRRVFVLAATNIP----WELDEALRRRF 353
Cdd:pfam07728  77 RANP---DVLNSLLSllderRLLLPDGGELVKAAPDGFRLIATMNPLdrglNELSPALRSRF 135
RecA-like_Ycf2 cd19505
ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; ...
 224-349 5.48e-03

ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; however, its function remains unclear. The gene encoding YCF2 is the largest known plastid gene in angiosperms and has been used to predict phylogenetic relationships. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410913 [Multi-domain]  Cd Length: 161  Bit Score: 37.74  E-value: 5.48e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 224 SPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSSTDLSSKW--------------RGDSEKIVRLLFELARFYAPSII 289
Cdd:cd19505  10 SPSKGILLIGSIETGRSYLIKSLAANSYVPLIRISLNKLLYNKpdfgnddwidgmliLKESLHRLNLQFELAKAMSPCII 89

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 17508421 290 FIDEIDTLGGQRGNSGEHEASRRVKSEFLVQMDGSQNKFDSRRVFVLAATNIPWELDEAL 349
Cdd:cd19505  90 WIPNIHELNVNRSTQNLEEDPKLLLGLLLNYLSRDFEKSSTRNILVIASTHIPQKVDPAL 149
rfc PRK00440
replication factor C small subunit; Reviewed
 191-249 5.92e-03

replication factor C small subunit; Reviewed


Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 38.70  E-value: 5.92e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 17508421  191 SLDDIIGMHDVKQVLHEAV---TLPLLVpeffqglrspwkamvLAGPPGTGKTLIARAIASE 249
Cdd:PRK00440  15 TLDEIVGQEEIVERLKSYVkekNMPHLL---------------FAGPPGTGKTTAALALARE 61
McrB COG1401
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 217-247 7.57e-03

5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];


Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 38.60  E-value: 7.57e-03
                        10        20        30
                ....*....|....*....|....*....|.
gi 17508421 217 EFFQGLRSPwKAMVLAGPPGTGKTLIARAIA 247
Cdd:COG1401 213 AFLAALKTK-KNVILAGPPGTGKTYLARRLA 242
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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