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Conserved domains on  [gi|1720355450|ref|XP_030110253|]
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E3 ubiquitin-protein ligase COP1 isoform X1 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN00181 super family cl31831
protein SPA1-RELATED; Provisional
 3-491 2.55e-117

protein SPA1-RELATED; Provisional


The actual alignment was detected with superfamily member PLN00181:

Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 363.25  E-value: 2.55e-117
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450   3 ELLVQKKKQLEAESHAAQL-------QILMEFLKVARRNKREQLEQIQKELSVLEEDIKRVEEMSGLYSpvSEDSTVPQF 75
Cdd:PLN00181  266 EFINEPRENLEEREAAMELrdrieeqELLLEFLFLIQQRKQEAADKLQDTISLLSSDIDQVVKRQLVLQ--QKGSDVRSF 343

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450  76 EAPSPSHSSIIDSTEYSQPPGFSGTSQTKKQpwyNSTLAsRRKRLTAHFEDLEQCYFSTRMSRIS--------------- 140
Cdd:PLN00181  344 LASRKRIRQGAETLAAEEENDDNSSKLDDTL---ESTLL-ESSRLMRNLKKLESVYFATRYRQIKaaaaaekplaryysa 419

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 141 ------------------------DDSRTASQLDEFQECLSKFTRYNSVRPLATLSyASDLYNGSSIVSSIEFDRDCDYF 196
Cdd:PLN00181  420 lsengrssekssmsnpakppdfyiNDSRQGGWIDPFLEGLCKYLSFSKLRVKADLK-QGDLLNSSNLVCAIGFDRDGEFF 498

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 197 AIAGVTKKIKVYEYGTVIQDAVDIHYPENEMTCNSKISCISWSSYHKNLLASSDYEGTVILWDGFTGQRSKVYQEHEKRC 276
Cdd:PLN00181  499 ATAGVNKKIKIFECESIIKDGRDIHYPVVELASRSKLSGICWNSYIKSQVASSNFEGVVQVWDVARSQLVTEMKEHEKRV 578

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 277 WSVDFNLMDPKLLASGSDDAKVKLWSTNLDNSVASIEAKANVCCVKFSPSSRYHLAFGCADHCVHYYDLRNTKQPIMVFK 356
Cdd:PLN00181  579 WSIDYSSADPTLLASGSDDGSVKLWSINQGVSIGTIKTKANICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPLCTMI 658

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 357 GHRKAVSYAKFVSGEEIVSASTDSQLKLWNVGKPYC------LRSFKGHINEKNFVGLASNGDYIACGSENNSLYLYYKG 430
Cdd:PLN00181  659 GHSKTVSYVRFVDSSTLVSSSTDNTLKLWDLSMSISginetpLHSFMGHTNVKNFVGLSVSDGYIATGSETNEVFVYHKA 738

                         490       500       510       520       530       540
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1720355450 431 LSKTLLTFKFDTVKSVldKDRKEDDTNEFVSAVCWRalsdGESNVLIAANSQGTIKVLELV 491
Cdd:PLN00181  739 FPMPVLSYKFKTIDPV--SGLEVDDASQFISSVCWR----GQSSTLVAANSTGNIKILEMV 793
 
Name Accession Description Interval E-value
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 3-491 2.55e-117

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 363.25  E-value: 2.55e-117
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450   3 ELLVQKKKQLEAESHAAQL-------QILMEFLKVARRNKREQLEQIQKELSVLEEDIKRVEEMSGLYSpvSEDSTVPQF 75
Cdd:PLN00181  266 EFINEPRENLEEREAAMELrdrieeqELLLEFLFLIQQRKQEAADKLQDTISLLSSDIDQVVKRQLVLQ--QKGSDVRSF 343

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450  76 EAPSPSHSSIIDSTEYSQPPGFSGTSQTKKQpwyNSTLAsRRKRLTAHFEDLEQCYFSTRMSRIS--------------- 140
Cdd:PLN00181  344 LASRKRIRQGAETLAAEEENDDNSSKLDDTL---ESTLL-ESSRLMRNLKKLESVYFATRYRQIKaaaaaekplaryysa 419

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 141 ------------------------DDSRTASQLDEFQECLSKFTRYNSVRPLATLSyASDLYNGSSIVSSIEFDRDCDYF 196
Cdd:PLN00181  420 lsengrssekssmsnpakppdfyiNDSRQGGWIDPFLEGLCKYLSFSKLRVKADLK-QGDLLNSSNLVCAIGFDRDGEFF 498

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 197 AIAGVTKKIKVYEYGTVIQDAVDIHYPENEMTCNSKISCISWSSYHKNLLASSDYEGTVILWDGFTGQRSKVYQEHEKRC 276
Cdd:PLN00181  499 ATAGVNKKIKIFECESIIKDGRDIHYPVVELASRSKLSGICWNSYIKSQVASSNFEGVVQVWDVARSQLVTEMKEHEKRV 578

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 277 WSVDFNLMDPKLLASGSDDAKVKLWSTNLDNSVASIEAKANVCCVKFSPSSRYHLAFGCADHCVHYYDLRNTKQPIMVFK 356
Cdd:PLN00181  579 WSIDYSSADPTLLASGSDDGSVKLWSINQGVSIGTIKTKANICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPLCTMI 658

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 357 GHRKAVSYAKFVSGEEIVSASTDSQLKLWNVGKPYC------LRSFKGHINEKNFVGLASNGDYIACGSENNSLYLYYKG 430
Cdd:PLN00181  659 GHSKTVSYVRFVDSSTLVSSSTDNTLKLWDLSMSISginetpLHSFMGHTNVKNFVGLSVSDGYIATGSETNEVFVYHKA 738

                         490       500       510       520       530       540
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1720355450 431 LSKTLLTFKFDTVKSVldKDRKEDDTNEFVSAVCWRalsdGESNVLIAANSQGTIKVLELV 491
Cdd:PLN00181  739 FPMPVLSYKFKTIDPV--SGLEVDDASQFISSVCWR----GQSSTLVAANSTGNIKILEMV 793
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 181-487 3.86e-40

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 146.33  E-value: 3.86e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 181 SSIVSSIEFDRDCDYFAIAGVTKKIKVYEYGTVIQDAVD-IHYpenemtcnSKISCISWSSYHKNLLASSdYEGTVILWD 259
Cdd:cd00200     9 TGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLkGHT--------GPVRDVAASADGTYLASGS-SDKTIRLWD 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 260 GFTGQRSKVYQEHEKRCWSVDFNlMDPKLLASGSDDAKVKLWSTNLDNSVASIEAKAN-VCCVKFSPSSRYhLAFGCADH 338
Cdd:cd00200    80 LETGECVRTLTGHTSYVSSVAFS-PDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDwVNSVAFSPDGTF-VASSSQDG 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 339 CVHYYDLRNTKqPIMVFKGHRKAVSYAKFV-SGEEIVSASTDSQLKLWNVGKPYCLRSFKGHINEKNFVGLASNGDYIAC 417
Cdd:cd00200   158 TIKLWDLRTGK-CVATLTGHTGEVNSVAFSpDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLAS 236

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 418 GSENNSLYLYykglsktlltfkfDTVKSVLDKDRKEddTNEFVSAVCWralsDGESNVLIAANSQGTIKV 487
Cdd:cd00200   237 GSEDGTIRVW-------------DLRTGECVQTLSG--HTNSVTSLAW----SPDGKRLASGSADGTIRI 287
WD40 COG2319
WD40 repeat [General function prediction only];
168-487 6.58e-35

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 134.65  E-value: 6.58e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 168 LATLSYASDLYNGSSIVSSIEFDRDCDYFAIAGVTKKIKVYEY--GTVIQdAVDIHypenemtcNSKISCISWSSyHKNL 245
Cdd:COG2319   107 LATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLatGKLLR-TLTGH--------SGAVTSVAFSP-DGKL 176

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 246 LASSDYEGTVILWDGFTGQRSKVYQEHEKRCWSVDFNLmDPKLLASGSDDAKVKLWSTNLDNSVASIEAKAN-VCCVKFS 324
Cdd:COG2319   177 LASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSP-DGKLLASGSADGTVRLWDLATGKLLRTLTGHSGsVRSVAFS 255

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 325 PSSRYhLAFGCADHCVHYYDLrNTKQPIMVFKGHRKAVSYAKFV-SGEEIVSASTDSQLKLWNVGKPYCLRSFKGHINEK 403
Cdd:COG2319   256 PDGRL-LASGSADGTVRLWDL-ATGELLRTLTGHSGGVNSVAFSpDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAV 333

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 404 NFVGLASNGDYIACGSENNSLYLYYKGLSKTLLTFKfdtvksvldkdrkedDTNEFVSAVCWRAlsDGesNVLIAANSQG 483
Cdd:COG2319   334 RSVAFSPDGKTLASGSDDGTVRLWDLATGELLRTLT---------------GHTGAVTSVAFSP--DG--RTLASGSADG 394


                  ....
gi 1720355450 484 TIKV 487
Cdd:COG2319   395 TVRL 398
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 262-302 4.47e-05

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 40.76  E-value: 4.47e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 1720355450  262 TGQRSKVYQEHEKRCWSVDFNlMDPKLLASGSDDAKVKLWS 302
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFS-PDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
263-302 2.93e-04

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 38.10  E-value: 2.93e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1720355450 263 GQRSKVYQEHEKRCWSVDFNlMDPKLLASGSDDAKVKLWS 302
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFS-PDGKLLASGSDDGTVKVWD 39
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 5-59 3.05e-03

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 40.43  E-value: 3.05e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1720355450    5 LVQKKKQLEAESHAAQLQIlmEFLKVARRNKREQLEQIQKELSVLEEDIKRVEEM 59
Cdd:TIGR02168  251 AEEELEELTAELQELEEKL--EELRLEVSELEEEIEELQKELYALANEISRLEQQ 303
 
Name Accession Description Interval E-value
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 3-491 2.55e-117

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 363.25  E-value: 2.55e-117
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450   3 ELLVQKKKQLEAESHAAQL-------QILMEFLKVARRNKREQLEQIQKELSVLEEDIKRVEEMSGLYSpvSEDSTVPQF 75
Cdd:PLN00181  266 EFINEPRENLEEREAAMELrdrieeqELLLEFLFLIQQRKQEAADKLQDTISLLSSDIDQVVKRQLVLQ--QKGSDVRSF 343

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450  76 EAPSPSHSSIIDSTEYSQPPGFSGTSQTKKQpwyNSTLAsRRKRLTAHFEDLEQCYFSTRMSRIS--------------- 140
Cdd:PLN00181  344 LASRKRIRQGAETLAAEEENDDNSSKLDDTL---ESTLL-ESSRLMRNLKKLESVYFATRYRQIKaaaaaekplaryysa 419

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 141 ------------------------DDSRTASQLDEFQECLSKFTRYNSVRPLATLSyASDLYNGSSIVSSIEFDRDCDYF 196
Cdd:PLN00181  420 lsengrssekssmsnpakppdfyiNDSRQGGWIDPFLEGLCKYLSFSKLRVKADLK-QGDLLNSSNLVCAIGFDRDGEFF 498

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 197 AIAGVTKKIKVYEYGTVIQDAVDIHYPENEMTCNSKISCISWSSYHKNLLASSDYEGTVILWDGFTGQRSKVYQEHEKRC 276
Cdd:PLN00181  499 ATAGVNKKIKIFECESIIKDGRDIHYPVVELASRSKLSGICWNSYIKSQVASSNFEGVVQVWDVARSQLVTEMKEHEKRV 578

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 277 WSVDFNLMDPKLLASGSDDAKVKLWSTNLDNSVASIEAKANVCCVKFSPSSRYHLAFGCADHCVHYYDLRNTKQPIMVFK 356
Cdd:PLN00181  579 WSIDYSSADPTLLASGSDDGSVKLWSINQGVSIGTIKTKANICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPLCTMI 658

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 357 GHRKAVSYAKFVSGEEIVSASTDSQLKLWNVGKPYC------LRSFKGHINEKNFVGLASNGDYIACGSENNSLYLYYKG 430
Cdd:PLN00181  659 GHSKTVSYVRFVDSSTLVSSSTDNTLKLWDLSMSISginetpLHSFMGHTNVKNFVGLSVSDGYIATGSETNEVFVYHKA 738

                         490       500       510       520       530       540
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1720355450 431 LSKTLLTFKFDTVKSVldKDRKEDDTNEFVSAVCWRalsdGESNVLIAANSQGTIKVLELV 491
Cdd:PLN00181  739 FPMPVLSYKFKTIDPV--SGLEVDDASQFISSVCWR----GQSSTLVAANSTGNIKILEMV 793
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 181-487 3.86e-40

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 146.33  E-value: 3.86e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 181 SSIVSSIEFDRDCDYFAIAGVTKKIKVYEYGTVIQDAVD-IHYpenemtcnSKISCISWSSYHKNLLASSdYEGTVILWD 259
Cdd:cd00200     9 TGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLkGHT--------GPVRDVAASADGTYLASGS-SDKTIRLWD 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 260 GFTGQRSKVYQEHEKRCWSVDFNlMDPKLLASGSDDAKVKLWSTNLDNSVASIEAKAN-VCCVKFSPSSRYhLAFGCADH 338
Cdd:cd00200    80 LETGECVRTLTGHTSYVSSVAFS-PDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDwVNSVAFSPDGTF-VASSSQDG 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 339 CVHYYDLRNTKqPIMVFKGHRKAVSYAKFV-SGEEIVSASTDSQLKLWNVGKPYCLRSFKGHINEKNFVGLASNGDYIAC 417
Cdd:cd00200   158 TIKLWDLRTGK-CVATLTGHTGEVNSVAFSpDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLAS 236

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 418 GSENNSLYLYykglsktlltfkfDTVKSVLDKDRKEddTNEFVSAVCWralsDGESNVLIAANSQGTIKV 487
Cdd:cd00200   237 GSEDGTIRVW-------------DLRTGECVQTLSG--HTNSVTSLAW----SPDGKRLASGSADGTIRI 287
WD40 COG2319
WD40 repeat [General function prediction only];
168-487 6.58e-35

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 134.65  E-value: 6.58e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 168 LATLSYASDLYNGSSIVSSIEFDRDCDYFAIAGVTKKIKVYEY--GTVIQdAVDIHypenemtcNSKISCISWSSyHKNL 245
Cdd:COG2319   107 LATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLatGKLLR-TLTGH--------SGAVTSVAFSP-DGKL 176

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 246 LASSDYEGTVILWDGFTGQRSKVYQEHEKRCWSVDFNLmDPKLLASGSDDAKVKLWSTNLDNSVASIEAKAN-VCCVKFS 324
Cdd:COG2319   177 LASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSP-DGKLLASGSADGTVRLWDLATGKLLRTLTGHSGsVRSVAFS 255

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 325 PSSRYhLAFGCADHCVHYYDLrNTKQPIMVFKGHRKAVSYAKFV-SGEEIVSASTDSQLKLWNVGKPYCLRSFKGHINEK 403
Cdd:COG2319   256 PDGRL-LASGSADGTVRLWDL-ATGELLRTLTGHSGGVNSVAFSpDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAV 333

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 404 NFVGLASNGDYIACGSENNSLYLYYKGLSKTLLTFKfdtvksvldkdrkedDTNEFVSAVCWRAlsDGesNVLIAANSQG 483
Cdd:COG2319   334 RSVAFSPDGKTLASGSDDGTVRLWDLATGELLRTLT---------------GHTGAVTSVAFSP--DG--RTLASGSADG 394


                  ....
gi 1720355450 484 TIKV 487
Cdd:COG2319   395 TVRL 398
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 168-427 1.72e-32

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 125.53  E-value: 1.72e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 168 LATLSYASDLYNGSSIVSSIEFDRDCDYFAIAGVTKKIKVYEYGTViqdavdihYPENEMTC-NSKISCISWSSyHKNLL 246
Cdd:cd00200    38 LETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWDLETG--------ECVRTLTGhTSYVSSVAFSP-DGRIL 108

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 247 ASSDYEGTVILWDGFTGQRSKVYQEHEKRCWSVDFNLmDPKLLASGSDDAKVKLWSTNLDNSVASIEA-KANVCCVKFSP 325
Cdd:cd00200   109 SSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSP-DGTFVASSSQDGTIKLWDLRTGKCVATLTGhTGEVNSVAFSP 187

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 326 SSRyHLAFGCADHCVHYYDLRnTKQPIMVFKGHRKAVSYAKF-VSGEEIVSASTDSQLKLWNVGKPYCLRSFKGHINEKN 404
Cdd:cd00200   188 DGE-KLLSSSSDGTIKLWDLS-TGKCLGTLRGHENGVNSVAFsPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVT 265

                         250       260
                  ....*....|....*....|...
gi 1720355450 405 FVGLASNGDYIACGSENNSLYLY 427
Cdd:cd00200   266 SLAWSPDGKRLASGSADGTIRIW 288
WD40 COG2319
WD40 repeat [General function prediction only];
166-427 3.53e-32

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 127.33  E-value: 3.53e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 166 RPLATLSyasdlyNGSSIVSSIEFDRDCDYFAIAGVTKKIKVYEY--GTVIQdAVDIHypenemtcNSKISCISWSSyHK 243
Cdd:COG2319   153 KLLRTLT------GHSGAVTSVAFSPDGKLLASGSDDGTVRLWDLatGKLLR-TLTGH--------TGAVRSVAFSP-DG 216

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 244 NLLASSDYEGTVILWDGFTGQRSKVYQEHEKRCWSVDFNLmDPKLLASGSDDAKVKLWSTNLDNSVASIEAKAN-VCCVK 322
Cdd:COG2319   217 KLLASGSADGTVRLWDLATGKLLRTLTGHSGSVRSVAFSP-DGRLLASGSADGTVRLWDLATGELLRTLTGHSGgVNSVA 295

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 323 FSPSSRYhLAFGCADHCVHYYDLrNTKQPIMVFKGHRKAVSYAKFVS-GEEIVSASTDSQLKLWNVGKPYCLRSFKGHIN 401
Cdd:COG2319   296 FSPDGKL-LASGSDDGTVRLWDL-ATGKLLRTLTGHTGAVRSVAFSPdGKTLASGSDDGTVRLWDLATGELLRTLTGHTG 373

                         250       260
                  ....*....|....*....|....*.
gi 1720355450 402 EKNFVGLASNGDYIACGSENNSLYLY 427
Cdd:COG2319   374 AVTSVAFSPDGRTLASGSADGTVRLW 399
WD40 COG2319
WD40 repeat [General function prediction only];
245-490 1.52e-28

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 116.93  E-value: 1.52e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 245 LLASSDYEGTVILWDGFTGQRSKVYQEHEKRCWSVDFNLmDPKLLASGSDDAKVKLWSTNLDNSVASIEAKAN-VCCVKF 323
Cdd:COG2319    92 LLASASADGTVRLWDLATGLLLRTLTGHTGAVRSVAFSP-DGKTLASGSADGTVRLWDLATGKLLRTLTGHSGaVTSVAF 170

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 324 SPSSRYhLAFGCADHCVHYYDLRnTKQPIMVFKGHRKAVSYAKFvS--GEEIVSASTDSQLKLWNVGKPYCLRSFKGHIN 401
Cdd:COG2319   171 SPDGKL-LASGSDDGTVRLWDLA-TGKLLRTLTGHTGAVRSVAF-SpdGKLLASGSADGTVRLWDLATGKLLRTLTGHSG 247

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 402 EKNFVGLASNGDYIACGSENNSLYLY--YKGLSKTLLTFKFDTVKSVldkdrkeddtnefvsavcwrALS-DGesNVLIA 478
Cdd:COG2319   248 SVRSVAFSPDGRLLASGSADGTVRLWdlATGELLRTLTGHSGGVNSV--------------------AFSpDG--KLLAS 305

                         250
                  ....*....|..
gi 1720355450 479 ANSQGTIKVLEL 490
Cdd:COG2319   306 GSDDGTVRLWDL 317
WD40 COG2319
WD40 repeat [General function prediction only];
181-387 5.23e-26

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 109.62  E-value: 5.23e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 181 SSIVSSIEFDRDCDYFAIAGVTKKIKVYEYGT-VIQDAVDIHypenemtcNSKISCISWSSYHKnLLASSDYEGTVILWD 259
Cdd:COG2319   204 TGAVRSVAFSPDGKLLASGSADGTVRLWDLATgKLLRTLTGH--------SGSVRSVAFSPDGR-LLASGSADGTVRLWD 274

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 260 GFTGQRSKVYQEHEKRCWSVDFNLmDPKLLASGSDDAKVKLWSTNLDNSVASIEAKAN-VCCVKFSPSSRYhLAFGCADH 338
Cdd:COG2319   275 LATGELLRTLTGHSGGVNSVAFSP-DGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGaVRSVAFSPDGKT-LASGSDDG 352

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 1720355450 339 CVHYYDLrNTKQPIMVFKGHRKAVSYAKFVS-GEEIVSASTDSQLKLWNV 387
Cdd:COG2319   353 TVRLWDL-ATGELLRTLTGHTGAVTSVAFSPdGRTLASGSADGTVRLWDL 401
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 266-490 1.41e-24

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 103.18  E-value: 1.41e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 266 SKVYQEHEKRCWSVDFNlMDPKLLASGSDDAKVKLWSTNLDNSVASIE-AKANVCCVKFSPSSRYhLAFGCADHCVHYYD 344
Cdd:cd00200     2 RRTLKGHTGGVTCVAFS-PDGKLLATGSGDGTIKVWDLETGELLRTLKgHTGPVRDVAASADGTY-LASGSSDKTIRLWD 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 345 LrNTKQPIMVFKGHRKAVSYAKFVSGEEIV-SASTDSQLKLWNVGKPYCLRSFKGHINEKNFVGLASNGDYIACGSENNS 423
Cdd:cd00200    80 L-ETGECVRTLTGHTSYVSSVAFSPDGRILsSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGT 158

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720355450 424 LYLYYKGLSKTLLTFKFDTvksvldkdrkeddtnEFVSAVCWralsDGESNVLIAANSQGTIKVLEL 490
Cdd:cd00200   159 IKLWDLRTGKCVATLTGHT---------------GEVNSVAF----SPDGEKLLSSSSDGTIKLWDL 206
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 184-386 6.76e-24

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 101.26  E-value: 6.76e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 184 VSSIEFDRDCDYFAIAGVTKKIKVYeygtviqdavDIHYPENEMTCNSK---ISCISWSSYHKnLLASSDYEGTVILWDG 260
Cdd:cd00200    96 VSSVAFSPDGRILSSSSRDKTIKVW----------DVETGKCLTTLRGHtdwVNSVAFSPDGT-FVASSSQDGTIKLWDL 164

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 261 FTGQRSKVYQEHEKRCWSVDFNLmDPKLLASGSDDAKVKLWSTNLDNSVASIEAKAN-VCCVKFSPSSRYhLAFGCADHC 339
Cdd:cd00200   165 RTGKCVATLTGHTGEVNSVAFSP-DGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENgVNSVAFSPDGYL-LASGSEDGT 242

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1720355450 340 VHYYDLRnTKQPIMVFKGHRKAVSYAKFV-SGEEIVSASTDSQLKLWN 386
Cdd:cd00200   243 IRVWDLR-TGECVQTLSGHTNSVTSLAWSpDGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
245-487 4.19e-23

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 101.14  E-value: 4.19e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 245 LLASSDYEGTVILWDGFTGQRSKVYQEHEKRCWSVDFNLmDPKLLASGSDDAKVKLWSTNLDNSVASIEA-KANVCCVKF 323
Cdd:COG2319    50 RLAAGAGDLTLLLLDAAAGALLATLLGHTAAVLSVAFSP-DGRLLASASADGTVRLWDLATGLLLRTLTGhTGAVRSVAF 128

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 324 SPSSRYhLAFGCADHCVHYYDLRnTKQPIMVFKGHRKAVSYAKFVS-GEEIVSASTDSQLKLWNVGKPYCLRSFKGHINE 402
Cdd:COG2319   129 SPDGKT-LASGSADGTVRLWDLA-TGKLLRTLTGHSGAVTSVAFSPdGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGA 206

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 403 KNFVGLASNGDYIACGSENNSLYLYYKGLSKTLLTFKFDTvksvldkdrkeddtnEFVSAVCWraLSDGEsnVLIAANSQ 482
Cdd:COG2319   207 VRSVAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGHS---------------GSVRSVAF--SPDGR--LLASGSAD 267


                  ....*
gi 1720355450 483 GTIKV 487
Cdd:COG2319   268 GTVRL 272
WD40 COG2319
WD40 repeat [General function prediction only];
181-304 1.88e-12

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 68.78  E-value: 1.88e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 181 SSIVSSIEFDRDCDYFAIAGVTKKIKVYEYGTviQDAVDIHYPENEMtcnskISCISWSSYHKnLLASSDYEGTVILWDG 260
Cdd:COG2319   288 SGGVNSVAFSPDGKLLASGSDDGTVRLWDLAT--GKLLRTLTGHTGA-----VRSVAFSPDGK-TLASGSDDGTVRLWDL 359

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1720355450 261 FTGQRSKVYQEHEKRCWSVDFNLmDPKLLASGSDDAKVKLWSTN 304
Cdd:COG2319   360 ATGELLRTLTGHTGAVTSVAFSP-DGRTLASGSADGTVRLWDLA 402
WD40 COG2319
WD40 repeat [General function prediction only];
285-487 8.29e-07

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 51.07  E-value: 8.29e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 285 DPKLLASGSDDAKVKLWSTNLDNSVASIEAKANVCCVKFSPSSRYHLAFGCADHCVHYYDLRNTKQPIMVFKGHRKAVSY 364
Cdd:COG2319     5 DGAALAAASADLALALLAAALGALLLLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHTAAVLSV 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720355450 365 AKFVSGEEIVSASTDSQLKLWNVGKPYCLRSFKGHINEKNFVGLASNGDYIACGSENNSLYLYYKGLSKTLLTFKFDTvk 444
Cdd:COG2319    85 AFSPDGRLLASASADGTVRLWDLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHS-- 162

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1720355450 445 svldkdrkeddtnEFVSAVCWRAlsDGEsnVLIAANSQGTIKV 487
Cdd:COG2319   163 -------------GAVTSVAFSP--DGK--LLASGSDDGTVRL 188
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 262-302 4.47e-05

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 40.76  E-value: 4.47e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 1720355450  262 TGQRSKVYQEHEKRCWSVDFNlMDPKLLASGSDDAKVKLWS 302
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFS-PDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
263-302 2.93e-04

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 38.10  E-value: 2.93e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1720355450 263 GQRSKVYQEHEKRCWSVDFNlMDPKLLASGSDDAKVKLWS 302
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFS-PDGKLLASGSDDGTVKVWD 39
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 348-386 3.74e-04

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 38.06  E-value: 3.74e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 1720355450  348 TKQPIMVFKGHRKAVSYAKFV-SGEEIVSASTDSQLKLWN 386
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSpDGKYLASGSDDGTIKLWD 40
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 5-59 3.05e-03

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 40.43  E-value: 3.05e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1720355450    5 LVQKKKQLEAESHAAQLQIlmEFLKVARRNKREQLEQIQKELSVLEEDIKRVEEM 59
Cdd:TIGR02168  251 AEEELEELTAELQELEEKL--EELRLEVSELEEEIEELQKELYALANEISRLEQQ 303
WD40 pfam00400
WD domain, G-beta repeat;
349-386 9.88e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 33.86  E-value: 9.88e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1720355450 349 KQPIMVFKGHRKAVSYAKF-VSGEEIVSASTDSQLKLWN 386
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFsPDGKLLASGSDDGTVKVWD 39
 
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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