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Conserved domains on  [gi|1834195229|gb|QJD13818|]
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Recombinase A, partial [Burkholderia cenocepacia]

Protein Classification

recombinase RecA family protein( domain architecture ID 1000164)

recombinase RecA catalyzes an ATP-dependent DNA strand-exchange reaction, which is a critical step in the repair of DNA double-strand breaks by homologous recombination

CATH:  3.30.250.10|3.40.50.300
Gene Ontology:  GO:0005524|GO:0003697|GO:0006310|GO:0006281|GO:0140664|GO:0003684|GO:0016887
PubMed:  12045091|9187054

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
recA super family cl35814
recombinase A; Provisional
 1-101 2.00e-68

recombinase A; Provisional


The actual alignment was detected with superfamily member PRK09354:

Pssm-ID: 236476 [Multi-domain]  Cd Length: 349  Bit Score: 208.11  E-value: 2.00e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229   1 KGSIMRMGDGEAtENIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDV 80
Cdd:PRK09354   24 KGSIMRLGDDAA-MDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDP 102

                          90       100
                  ....*....|....*....|.
gi 1834195229  81 QYASKLGVNVPELLISQPDTG 101
Cdd:PRK09354  103 VYAKKLGVDIDNLLVSQPDTG 123
 
Name Accession Description Interval E-value
recA PRK09354
recombinase A; Provisional
 1-101 2.00e-68

recombinase A; Provisional


Pssm-ID: 236476 [Multi-domain]  Cd Length: 349  Bit Score: 208.11  E-value: 2.00e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229   1 KGSIMRMGDGEAtENIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDV 80
Cdd:PRK09354   24 KGSIMRLGDDAA-MDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDP 102

                          90       100
                  ....*....|....*....|.
gi 1834195229  81 QYASKLGVNVPELLISQPDTG 101
Cdd:PRK09354  103 VYAKKLGVDIDNLLVSQPDTG 123
RecA COG0468
RecA/RadA recombinase [Replication, recombination and repair];
1-101 1.72e-66

RecA/RadA recombinase [Replication, recombination and repair];


Pssm-ID: 440236 [Multi-domain]  Cd Length: 351  Bit Score: 203.09  E-value: 1.72e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229   1 KGSIMRMGDgEATENIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDV 80
Cdd:COG0468    27 KGSIMRLGD-KARQDVEVISTGSLALDIALGVGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGIAAFIDAEHALDP 105

                          90       100
                  ....*....|....*....|.
gi 1834195229  81 QYASKLGVNVPELLISQPDTG 101
Cdd:COG0468   106 EYAKKLGVDIDNLLVSQPDTG 126
tigrfam_recA TIGR02012
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization ...
 1-101 5.37e-59

protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 162659 [Multi-domain]  Cd Length: 321  Bit Score: 183.34  E-value: 5.37e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229   1 KGSIMRMGDgEATENIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDV 80
Cdd:TIGR02012  19 KGSIMRLGE-KTVMDVETISTGSLALDLALGVGGLPKGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDP 97

                          90       100
                  ....*....|....*....|.
gi 1834195229  81 QYASKLGVNVPELLISQPDTG 101
Cdd:TIGR02012  98 VYARKLGVDIDNLLVSQPDTG 118
RecA pfam00154
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ...
 1-101 6.96e-59

recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA repair systems. RecA protein catalyzes an ATP-dependent DNA strand-exchange reaction that is the central step in the repair of dsDNA breaks by homologous recombination.


Pssm-ID: 425488 [Multi-domain]  Cd Length: 262  Bit Score: 181.06  E-value: 6.96e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229   1 KGSIMRMGDgEATENIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDV 80
Cdd:pfam00154  16 KGSIMKLGD-EKKLDVETISTGSLALDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDP 94

                          90       100
                  ....*....|....*....|.
gi 1834195229  81 QYASKLGVNVPELLISQPDTG 101
Cdd:pfam00154  95 VYAKKLGVDIDNLLVSQPDTG 115
RecA cd00983
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 15-101 1.72e-54

recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.


Pssm-ID: 410863 [Multi-domain]  Cd Length: 235  Bit Score: 168.89  E-value: 1.72e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229  15 NIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDVQYASKLGVNVPELL 94
Cdd:cd00983     1 DVEVIPTGSLSLDIALGIGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKLGGTAAFIDAEHALDPEYAKKLGVDIDNLL 80


                  ....*..
gi 1834195229  95 ISQPDTG 101
Cdd:cd00983    81 VSQPDTG 87
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 37-92 1.09e-04

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: 38.51  E-value: 1.09e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1834195229   37 RGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDVQYASKLGVNVPE 92
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGG 56
 
Name Accession Description Interval E-value
recA PRK09354
recombinase A; Provisional
 1-101 2.00e-68

recombinase A; Provisional


Pssm-ID: 236476 [Multi-domain]  Cd Length: 349  Bit Score: 208.11  E-value: 2.00e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229   1 KGSIMRMGDGEAtENIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDV 80
Cdd:PRK09354   24 KGSIMRLGDDAA-MDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDP 102

                          90       100
                  ....*....|....*....|.
gi 1834195229  81 QYASKLGVNVPELLISQPDTG 101
Cdd:PRK09354  103 VYAKKLGVDIDNLLVSQPDTG 123
RecA COG0468
RecA/RadA recombinase [Replication, recombination and repair];
1-101 1.72e-66

RecA/RadA recombinase [Replication, recombination and repair];


Pssm-ID: 440236 [Multi-domain]  Cd Length: 351  Bit Score: 203.09  E-value: 1.72e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229   1 KGSIMRMGDgEATENIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDV 80
Cdd:COG0468    27 KGSIMRLGD-KARQDVEVISTGSLALDIALGVGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGIAAFIDAEHALDP 105

                          90       100
                  ....*....|....*....|.
gi 1834195229  81 QYASKLGVNVPELLISQPDTG 101
Cdd:COG0468   106 EYAKKLGVDIDNLLVSQPDTG 126
tigrfam_recA TIGR02012
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization ...
 1-101 5.37e-59

protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 162659 [Multi-domain]  Cd Length: 321  Bit Score: 183.34  E-value: 5.37e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229   1 KGSIMRMGDgEATENIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDV 80
Cdd:TIGR02012  19 KGSIMRLGE-KTVMDVETISTGSLALDLALGVGGLPKGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDP 97

                          90       100
                  ....*....|....*....|.
gi 1834195229  81 QYASKLGVNVPELLISQPDTG 101
Cdd:TIGR02012  98 VYARKLGVDIDNLLVSQPDTG 118
RecA pfam00154
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ...
 1-101 6.96e-59

recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA repair systems. RecA protein catalyzes an ATP-dependent DNA strand-exchange reaction that is the central step in the repair of dsDNA breaks by homologous recombination.


Pssm-ID: 425488 [Multi-domain]  Cd Length: 262  Bit Score: 181.06  E-value: 6.96e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229   1 KGSIMRMGDgEATENIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDV 80
Cdd:pfam00154  16 KGSIMKLGD-EKKLDVETISTGSLALDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDP 94

                          90       100
                  ....*....|....*....|.
gi 1834195229  81 QYASKLGVNVPELLISQPDTG 101
Cdd:pfam00154  95 VYAKKLGVDIDNLLVSQPDTG 115
RecA cd00983
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 15-101 1.72e-54

recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.


Pssm-ID: 410863 [Multi-domain]  Cd Length: 235  Bit Score: 168.89  E-value: 1.72e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229  15 NIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDVQYASKLGVNVPELL 94
Cdd:cd00983     1 DVEVIPTGSLSLDIALGIGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKLGGTAAFIDAEHALDPEYAKKLGVDIDNLL 80


                  ....*..
gi 1834195229  95 ISQPDTG 101
Cdd:cd00983    81 VSQPDTG 87
recA PRK09519
intein-containing recombinase RecA;
1-101 1.64e-42

intein-containing recombinase RecA;


Pssm-ID: 77219 [Multi-domain]  Cd Length: 790  Bit Score: 147.16  E-value: 1.64e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229   1 KGSIMRMGDgEATENIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDV 80
Cdd:PRK09519   24 KGSVMRLGD-EARQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDP 102

                          90       100
                  ....*....|....*....|.
gi 1834195229  81 QYASKLGVNVPELLISQPDTG 101
Cdd:PRK09519  103 DYAKKLGVDTDSLLVSQPDTG 123
RecA-like cd01393
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 38-86 1.20e-14

RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs RadA and RadB.


Pssm-ID: 410881 [Multi-domain]  Cd Length: 185  Bit Score: 65.45  E-value: 1.20e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1834195229  38 GRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDVQYASKL 86
Cdd:cd01393     1 GKITEIYGPPGSGKTQLALQLAANALLLGGGVVWIDTEGAFPPSRLVQI 49
archRadB cd01394
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ...
 19-75 2.02e-11

archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional homologue to the bacterial RecA. The precise function of RadB is unclear.


Pssm-ID: 410882 [Multi-domain]  Cd Length: 216  Bit Score: 57.71  E-value: 2.02e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1834195229  19 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAE 75
Cdd:cd01394     1 LSTGSKSLDSLLG-GGVERGTITQIYGPPGSGKTNICLQLAVEAAKQGKKVVYIDTE 56
RAD55 COG0467
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
19-94 2.65e-10

RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];


Pssm-ID: 440235 [Multi-domain]  Cd Length: 221  Bit Score: 54.54  E-value: 2.65e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1834195229  19 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALD--VQYASKLGVNVPELL 94
Cdd:COG0467     2 VPTGIPGLDELLG-GGLPRGSSTLLSGPPGTGKTTLALQFLAEGLRRGEKGLYVSFEESPEqlLRRAESLGLDLEEYI 78
radB PRK09361
DNA repair and recombination protein RadB; Provisional
 15-75 8.40e-10

DNA repair and recombination protein RadB; Provisional


Pssm-ID: 236482 [Multi-domain]  Cd Length: 225  Bit Score: 53.33  E-value: 8.40e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1834195229  15 NIQVVSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAE 75
Cdd:PRK09361    1 MDERLPTGCKMLDELLG-GGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE 60
COG4544 COG4544
Uncharacterized conserved protein [Function unknown];
8-99 7.45e-09

Uncharacterized conserved protein [Function unknown];


Pssm-ID: 443609 [Multi-domain]  Cd Length: 230  Bit Score: 50.70  E-value: 7.45e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229   8 GDGEATENIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPE-SSGKTTLTLQVIAELQKIGGTAAFIDAEHALdvqYA--- 83
Cdd:COG4544    18 GEGLAAAARAVLPTGFAALDAALPGGGLPRGALHEILGPApGIGELGLLLPLLARLAQAGGPVLWIAPPYDL---YApgl 94

                          90
                  ....*....|....*.
gi 1834195229  84 SKLGVNVPELLISQPD 99
Cdd:COG4544    95 AAAGLDPERLLLVRAR 110
recomb_radB TIGR02237
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ...
 26-75 2.39e-07

DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).


Pssm-ID: 274047 [Multi-domain]  Cd Length: 209  Bit Score: 46.26  E-value: 2.39e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1834195229  26 LDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAE 75
Cdd:TIGR02237   1 IDELLG-GGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTE 49
KaiC-like_N cd19488
N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ...
 19-72 9.05e-07

N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.


Pssm-ID: 410896 [Multi-domain]  Cd Length: 225  Bit Score: 45.03  E-value: 9.05e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1834195229  19 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFI 72
Cdd:cd19488     1 ISTGIPGLDDILR-GGLPPRRLYLVEGAPGTGKTTLALQFLLEGAANGETGLYI 53
KaiC-like cd01124
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ...
 19-72 1.24e-06

Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.


Pssm-ID: 410869 [Multi-domain]  Cd Length: 222  Bit Score: 44.56  E-value: 1.24e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1834195229  19 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFI 72
Cdd:cd01124     1 VKTGIPGLDELLG-GGIPKGSVTLLTGGPGTGKTLFGLQFLYAGAKNGEPGLFF 53
XRCC2 cd19490
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ...
 38-97 3.16e-06

XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells 2) recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. XRCC2, together with the other RAD51 paralogs, RAD51B, RAD51C, RAD51D, and XRCC3, helps recruit RAD51 to the break site.


Pssm-ID: 410898 [Multi-domain]  Cd Length: 226  Bit Score: 43.49  E-value: 3.16e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1834195229  38 GRVVEIYGPESSGKTTLTLQVIA---------ELQKIGGTAA--FIDAEHALDVqyaSKLgVNVPELLISQ 97
Cdd:cd19490     1 GDVIEITGPSGSGKTELLYHLAArcilpsswgGVPLGGLEAAvvFIDTDGRFDI---LRL-RSILEARIRA 67
Rad51 pfam08423
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ...
 19-95 3.28e-06

Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ATPase RecA protein.


Pssm-ID: 462471 [Multi-domain]  Cd Length: 255  Bit Score: 43.44  E-value: 3.28e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229  19 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL--TLQVIAELQK-IGGT---AAFIDAEHALD----VQYASKLGV 88
Cdd:pfam08423  19 ITTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLchTLCVTCQLPLeMGGGegkALYIDTEGTFRperlVAIAERYGL 97


                  ....*..
gi 1834195229  89 NVPELLI 95
Cdd:pfam08423  98 DPEDVLD 104
radA PRK04301
DNA repair and recombination protein RadA; Validated
 14-75 3.38e-06

DNA repair and recombination protein RadA; Validated


Pssm-ID: 235273 [Multi-domain]  Cd Length: 317  Bit Score: 43.71  E-value: 3.38e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1834195229  14 ENIQVVSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVIAELQK------IGGTAAFIDAE 75
Cdd:PRK04301   79 KNVGKITTGSKELDELLG-GGIETQSITEFYGEFGSGKTQICHQLAVNVQLpeekggLEGKAVYIDTE 145
Rad51B cd19493
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 27-77 4.11e-06

RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51B, together with the other RAD51 paralogs, RAD51C, RAD51D, XRCC3, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410901 [Multi-domain]  Cd Length: 222  Bit Score: 43.08  E-value: 4.11e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1834195229  27 DIALGvGGLPRGRVVEIYGPESSGKT----TLTLQVIAELQKIGGTAA--FIDAEHA 77
Cdd:cd19493     1 DTALA-GGLPLGAITEITGASGSGKTqfalTLASSAAMPARKGGLDGGvlYIDTESK 56
ATPase pfam06745
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ...
 19-93 7.63e-06

KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and eukaryotes. More than one copy is sometimes found in each protein. This family includes KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria.


Pssm-ID: 429095 [Multi-domain]  Cd Length: 231  Bit Score: 42.23  E-value: 7.63e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1834195229  19 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVIAE-LQKIGGTAAFIDA-EHALDV-QYASKLGVNVPEL 93
Cdd:pfam06745   1 VKTGIPGLDEILK-GGFPEGRVVLITGGPGTGKTIFGLQFLYNgALKYGEPGVFVTLeEPPEDLrENARSFGWDLEKL 77
PLN03186 PLN03186
DNA repair protein RAD51 homolog; Provisional
 19-94 1.52e-05

DNA repair protein RAD51 homolog; Provisional


Pssm-ID: 178728 [Multi-domain]  Cd Length: 342  Bit Score: 41.64  E-value: 1.52e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229  19 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL--TLQVIAEL---QKIG-GTAAFIDAEHALD----VQYASKLGV 88
Cdd:PLN03186  105 ITTGSRELDKILE-GGIETGSITEIYGEFRTGKTQLchTLCVTCQLpldQGGGeGKAMYIDTEGTFRpqrlIQIAERFGL 183


                  ....*.
gi 1834195229  89 NVPELL 94
Cdd:PLN03186  184 NGADVL 189
PTZ00035 PTZ00035
Rad51 protein; Provisional
 11-75 2.93e-05

Rad51 protein; Provisional


Pssm-ID: 185407 [Multi-domain]  Cd Length: 337  Bit Score: 40.75  E-value: 2.93e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1834195229  11 EATENIQVVSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL--TLQVIAEL---QKIG-GTAAFIDAE 75
Cdd:PTZ00035   92 EARKNIIRITTGSTQLDKLLG-GGIETGSITELFGEFRTGKTQLchTLCVTCQLpieQGGGeGKVLYIDTE 161
archRadA cd19515
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ...
 19-94 3.83e-05

archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a homolog of Rad51. RAD51 recombinase plays an essential role in DNA repair by homologous recombination (HR)


Pssm-ID: 410923 [Multi-domain]  Cd Length: 233  Bit Score: 40.42  E-value: 3.83e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229  19 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVIAELQK------IGGTAAFIDAEHALD----VQYASKLGV 88
Cdd:cd19515     1 ISTGSKELDKLLG-GGIETQAITEVFGEFGSGKTQLCHQLAVNVQLppeeggLNGKAVYIDTENTFRperiMQMAKALGL 79


                  ....*.
gi 1834195229  89 NVPELL 94
Cdd:cd19515    80 DPDEVL 85
ATPase_2 pfam01637
ATPase domain predominantly from Archaea; This family contain a conserved P-loop motif that is ...
 43-74 9.59e-05

ATPase domain predominantly from Archaea; This family contain a conserved P-loop motif that is involved in binding ATP. There are eukaryote members as well as archaeal members in this family.


Pssm-ID: 376582 [Multi-domain]  Cd Length: 222  Bit Score: 39.23  E-value: 9.59e-05
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1834195229  43 IYGPESSGKTTLTLQVIAELQKIGGTAAFIDA 74
Cdd:pfam01637  25 IYGPEGCGKTALLRESIENLLDLGYYVIYYDP 56
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 37-92 1.09e-04

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: 38.51  E-value: 1.09e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1834195229   37 RGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDVQYASKLGVNVPE 92
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGG 56
XRCC3 cd19491
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ...
 26-78 2.33e-04

XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells 3) recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. XRCC3, together with the other RAD51 paralogs, RAD51B, RAD51C, RAD51D, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410899 [Multi-domain]  Cd Length: 250  Bit Score: 38.43  E-value: 2.33e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1834195229  26 LDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVIA------ELQKIGGTAAFIDAEHAL 78
Cdd:cd19491     1 LDELLG-GGIPVGGITEIAGESGAGKTQLCLQLALtvqlprELGGLGGGAVYICTESSF 58
Rad51 cd19513
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ...
 19-75 2.37e-04

RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51 is recruited to the break site with the help of its paralogs, RAD51D, RAD51B, RAD51C, XRCC3, and XRCC2, where it forms long helical polymers which wrap around the ssDNA tail at the break which leads to pairing and strand invasion.


Pssm-ID: 410921 [Multi-domain]  Cd Length: 235  Bit Score: 38.07  E-value: 2.37e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1834195229  19 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL--TLQVIAEL---QKIG-GTAAFIDAE 75
Cdd:cd19513     1 ITTGSKELDKLLG-GGIETGSITELFGEFRTGKTQLchTLAVTCQLpidQGGGeGKALYIDTE 62
RadA_SMS_N cd01121
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ...
 13-95 2.51e-04

bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a role in recombination and recombinational repair of DNA damaged by UV radiation, X-rays, and chemical agent and is responsible for the stabilization or processing of branched DNA molecules.


Pssm-ID: 410866 [Multi-domain]  Cd Length: 268  Bit Score: 38.28  E-value: 2.51e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229  13 TENIQVVSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVIAELQKIGGTAAFIDAEHALDvQY---ASKLGVN 89
Cdd:cd01121    58 AEEEERISTGIGELDRVLG-GGLVPGSVVLIGGDPGIGKSTLLLQVAARLAQRGGKVLYVSGEESLS-QIklrAERLGLG 135


                  ....*.
gi 1834195229  90 VPELLI 95
Cdd:cd01121   136 SDNLYL 141
Rad51D cd19489
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 33-63 3.60e-04

RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51D, together with the other RAD51 paralogs, RAD51B, RAD51C, XRCC3, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410897 [Multi-domain]  Cd Length: 209  Bit Score: 37.62  E-value: 3.60e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1834195229  33 GGLPRGRVVEIYGPESSGKT----TLTLQVIAELQ 63
Cdd:cd19489     2 GGLRTGEITELVGESSSGKTqlclTAAANVASRSG 36
recomb_RAD51 TIGR02239
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ...
 19-94 3.61e-04

DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).


Pssm-ID: 274048 [Multi-domain]  Cd Length: 316  Bit Score: 37.78  E-value: 3.61e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1834195229  19 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL--TLQVIAEL---QKIG-GTAAFIDAEHALD----VQYASKLGV 88
Cdd:TIGR02239  78 LTTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLchTLAVTCQLpidQGGGeGKALYIDTEGTFRperlLAIAERYGL 156


                  ....*.
gi 1834195229  89 NVPELL 94
Cdd:TIGR02239 157 NPEDVL 162
Rad51_DMC1_archRadA cd01123
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ...
 19-75 5.03e-04

recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal protein RadA. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .


Pssm-ID: 410868 [Multi-domain]  Cd Length: 234  Bit Score: 37.12  E-value: 5.03e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1834195229  19 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL--TLQVIAELQ----KIGGTAAFIDAE 75
Cdd:cd01123     1 ITTGSKELDKLLG-GGIETGSITEMFGEFRTGKTQLchTLAVTCQLPidrgGGEGKAIYIDTE 62
PRK09302 PRK09302
circadian clock protein KaiC; Reviewed
 7-61 5.37e-04

circadian clock protein KaiC; Reviewed


Pssm-ID: 236461 [Multi-domain]  Cd Length: 509  Bit Score: 37.17  E-value: 5.37e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1834195229   7 MGDGEATENIQVVSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVIAE 61
Cdd:PRK09302    1 MNQPSASPGIEKLPTGIEGFDDITH-GGLPKGRPTLVSGTAGTGKTLFALQFLVN 54
PLN03187 PLN03187
meiotic recombination protein DMC1 homolog; Provisional
 19-75 9.43e-04

meiotic recombination protein DMC1 homolog; Provisional


Pssm-ID: 215620 [Multi-domain]  Cd Length: 344  Bit Score: 36.68  E-value: 9.43e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1834195229  19 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL--TLQVIAEL--QKIGGTA--AFIDAE 75
Cdd:PLN03187  108 ITTGSQALDELLG-GGIETRCITEAFGEFRSGKTQLahTLCVTTQLptEMGGGNGkvAYIDTE 169
FlaH COG2874
Archaellum biogenesis ATPase ArlH/FlaH [Cell motility];
19-57 1.03e-03

Archaellum biogenesis ATPase ArlH/FlaH [Cell motility];


Pssm-ID: 442121  Cd Length: 230  Bit Score: 36.35  E-value: 1.03e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1834195229  19 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQ 57
Cdd:COG2874     3 ISTGNDELDKRLG-GGIPLGSLVLIEGENGTGKSVLSQQ 40
COG1373 COG1373
Predicted ATPase, AAA+ superfamily [General function prediction only];
35-85 1.09e-03

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


Pssm-ID: 440984 [Multi-domain]  Cd Length: 405  Bit Score: 36.46  E-value: 1.09e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1834195229  35 LPRGRVVEIYGPESSGKTTLTLQVIAELQKIggtaAFIDAEHALDVQYASK 85
Cdd:COG1373    17 LDNRKAVVITGPRQVGKTTLLKQLAKELENI----LYINLDDPRLRALAEE 63
NadR3 COG3172
Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase ...
 39-57 1.30e-03

Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase is part of the Pathway/BioSystem: NAD biosynthesis


Pssm-ID: 442405 [Multi-domain]  Cd Length: 178  Bit Score: 35.95  E-value: 1.30e-03
                          10
                  ....*....|....*....
gi 1834195229  39 RVVeIYGPESSGKTTLTLQ 57
Cdd:COG3172    10 KIV-LLGAESTGKTTLARA 27
fbpC PRK11432
ferric ABC transporter ATP-binding protein;
35-84 1.93e-03

ferric ABC transporter ATP-binding protein;


Pssm-ID: 183133 [Multi-domain]  Cd Length: 351  Bit Score: 35.85  E-value: 1.93e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1834195229  35 LPRGRVVEIYGPESSGKTTLtLQVIAELQKIGGTAAFIDAEhalDVQYAS 84
Cdd:PRK11432   29 IKQGTMVTLLGPSGCGKTTV-LRLVAGLEKPTEGQIFIDGE---DVTHRS 74
PRK10851 PRK10851
sulfate/thiosulfate ABC transporter ATP-binding protein CysA;
27-63 2.26e-03

sulfate/thiosulfate ABC transporter ATP-binding protein CysA;


Pssm-ID: 182778 [Multi-domain]  Cd Length: 353  Bit Score: 35.44  E-value: 2.26e-03
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1834195229  27 DIALGVgglPRGRVVEIYGPESSGKTTLtLQVIAELQ 63
Cdd:PRK10851   20 DISLDI---PSGQMVALLGPSGSGKTTL-LRIIAGLE 52
PRK06067 PRK06067
flagellar accessory protein FlaH; Validated
 14-59 2.81e-03

flagellar accessory protein FlaH; Validated


Pssm-ID: 180381  Cd Length: 234  Bit Score: 35.33  E-value: 2.81e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1834195229  14 ENIQVVSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVI 59
Cdd:PRK06067    2 GKKEIISTGNEELDRKLG-GGIPFPSLILIEGDHGTGKSVLSQQFV 46
KaiC-like_C cd19487
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ...
 19-61 7.85e-03

C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.


Pssm-ID: 410895 [Multi-domain]  Cd Length: 219  Bit Score: 33.81  E-value: 7.85e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1834195229  19 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVIAE 61
Cdd:cd19487     1 VSSGVPELDELLG-GGLERGTSTLLIGPAGVGKSTLALQFAKA 42
 
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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