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Conserved domains on  [gi|567856067|gb|AHC97605|]
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RecA, partial [Burkholderia sp. MM6502C-R5]

Protein Classification

recombinase RecA( domain architecture ID 11484000)

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:  8587109|12045091|9187054

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
recA PRK09354
recombinase A; Provisional
 1-210 8.00e-166

recombinase A; Provisional


:

Pssm-ID: 236476 [Multi-domain]  Cd Length: 349  Bit Score: 460.03  E-value: 8.00e-166
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   1 ALAAALAQIEKQFGKGSVMRLGAgEAVEDIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLG 80
Cdd:PRK09354  10 ALEAALKQIEKQFGKGSIMRLGD-DAAMDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAG 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  81 GTAAFIDAEHALDIQYAGKLGVNVNDLLVSQPDTGEQALEIADALVRSGSIDMIVIDSVAALVPKAEIEGEMGDSLPGLQ 160
Cdd:PRK09354  89 GTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQ 168

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 567856067 161 ARLMSQALRKLTGTIKRTNCLVIFINQIRMKIGVMFGNPETTTGGNALKF 210
Cdd:PRK09354 169 ARLMSQALRKLTGNISKSNTTVIFINQIREKIGVMFGNPETTTGGNALKF 218
 
Name Accession Description Interval E-value
recA PRK09354
recombinase A; Provisional
 1-210 8.00e-166

recombinase A; Provisional


Pssm-ID: 236476 [Multi-domain]  Cd Length: 349  Bit Score: 460.03  E-value: 8.00e-166
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   1 ALAAALAQIEKQFGKGSVMRLGAgEAVEDIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLG 80
Cdd:PRK09354  10 ALEAALKQIEKQFGKGSIMRLGD-DAAMDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAG 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  81 GTAAFIDAEHALDIQYAGKLGVNVNDLLVSQPDTGEQALEIADALVRSGSIDMIVIDSVAALVPKAEIEGEMGDSLPGLQ 160
Cdd:PRK09354  89 GTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQ 168

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 567856067 161 ARLMSQALRKLTGTIKRTNCLVIFINQIRMKIGVMFGNPETTTGGNALKF 210
Cdd:PRK09354 169 ARLMSQALRKLTGNISKSNTTVIFINQIREKIGVMFGNPETTTGGNALKF 218
RecA COG0468
RecA/RadA recombinase [Replication, recombination and repair];
1-210 9.77e-161

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


Pssm-ID: 440236 [Multi-domain]  Cd Length: 351  Bit Score: 447.31  E-value: 9.77e-161
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   1 ALAAALAQIEKQFGKGSVMRLGAgEAVEDIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLG 80
Cdd:COG0468   13 ALEAALSQIEKQFGKGSIMRLGD-KARQDVEVISTGSLALDIALGVGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAG 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  81 GTAAFIDAEHALDIQYAGKLGVNVNDLLVSQPDTGEQALEIADALVRSGSIDMIVIDSVAALVPKAEIEGEMGDSLPGLQ 160
Cdd:COG0468   92 GIAAFIDAEHALDPEYAKKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQ 171

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 567856067 161 ARLMSQALRKLTGTIKRTNCLVIFINQIRMKIGVMFGNPETTTGGNALKF 210
Cdd:COG0468  172 ARLMSQALRKLTGAISKSNTTVIFINQLREKIGVMFGNPETTTGGNALKF 221
RecA pfam00154
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ...
 1-210 2.25e-146

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: 407.56  E-value: 2.25e-146
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067    1 ALAAALAQIEKQFGKGSVMRLGaGEAVEDIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLG 80
Cdd:pfam00154   2 ALEAALKQIEKQFGKGSIMKLG-DEKKLDVETISTGSLALDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKAG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   81 GTAAFIDAEHALDIQYAGKLGVNVNDLLVSQPDTGEQALEIADALVRSGSIDMIVIDSVAALVPKAEIEGEMGDSLPGLQ 160
Cdd:pfam00154  81 GTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADMLVRSGAIDLIVVDSVAALVPKAEIEGEMGDSHVGLQ 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 567856067  161 ARLMSQALRKLTGTIKRTNCLVIFINQIRMKIGVMFGNPETTTGGNALKF 210
Cdd:pfam00154 161 ARLMSQALRKLTGSISKSNTTVIFINQIREKIGVMFGNPETTTGGRALKF 210
tigrfam_recA TIGR02012
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization ...
 1-210 4.30e-145

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: 406.76  E-value: 4.30e-145
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067    1 ALAAALAQIEKQFGKGSVMRLGAgEAVEDIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLG 80
Cdd:TIGR02012   5 ALEAALAQIEKQFGKGSIMRLGE-KTVMDVETISTGSLALDLALGVGGLPKGRIIEIYGPESSGKTTLALHAIAEAQKAG 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   81 GTAAFIDAEHALDIQYAGKLGVNVNDLLVSQPDTGEQALEIADALVRSGSIDMIVIDSVAALVPKAEIEGEMGDSLPGLQ 160
Cdd:TIGR02012  84 GTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDIIVVDSVAALVPKAEIEGEMGDSHVGLQ 163

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 567856067  161 ARLMSQALRKLTGTIKRTNCLVIFINQIRMKIGVMFGNPETTTGGNALKF 210
Cdd:TIGR02012 164 ARLMSQALRKLTGALSKSNTTAIFINQIREKIGVMFGNPETTTGGNALKF 213
RecA cd00983
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 29-210 1.78e-131

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: 368.81  E-value: 1.78e-131
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  29 DIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAEHALDIQYAGKLGVNVNDLL 108
Cdd:cd00983    1 DVEVIPTGSLSLDIALGIGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKLGGTAAFIDAEHALDPEYAKKLGVDIDNLL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 109 VSQPDTGEQALEIADALVRSGSIDMIVIDSVAALVPKAEIEGEMGDSLPGLQARLMSQALRKLTGTIKRTNCLVIFINQI 188
Cdd:cd00983   81 VSQPDTGEQALEIADTLIRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSLSKSKTTVIFINQL 160

                        170       180
                 ....*....|....*....|..
gi 567856067 189 RMKIGVMFGNPETTTGGNALKF 210
Cdd:cd00983  161 REKIGVMFGNPETTTGGNALKF 182
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 51-193 8.77e-10

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: 55.07  E-value: 8.77e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067    51 RGRVVEIYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAEHALDIQYAGKLGVNVNDLLVSqpDTGEQALEIADALVRSGS 130
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS--GSGELRLRLALALARKLK 78

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 567856067   131 IDMIVIDSVAALVPKAEiegemgdslpgLQARLMSQALRKLTGTIKRTNCLVIFINQIRMKIG 193
Cdd:smart00382  79 PDVLILDEITSLLDAEQ-----------EALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLG 130
 
Name Accession Description Interval E-value
recA PRK09354
recombinase A; Provisional
 1-210 8.00e-166

recombinase A; Provisional


Pssm-ID: 236476 [Multi-domain]  Cd Length: 349  Bit Score: 460.03  E-value: 8.00e-166
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   1 ALAAALAQIEKQFGKGSVMRLGAgEAVEDIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLG 80
Cdd:PRK09354  10 ALEAALKQIEKQFGKGSIMRLGD-DAAMDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAG 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  81 GTAAFIDAEHALDIQYAGKLGVNVNDLLVSQPDTGEQALEIADALVRSGSIDMIVIDSVAALVPKAEIEGEMGDSLPGLQ 160
Cdd:PRK09354  89 GTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQ 168

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 567856067 161 ARLMSQALRKLTGTIKRTNCLVIFINQIRMKIGVMFGNPETTTGGNALKF 210
Cdd:PRK09354 169 ARLMSQALRKLTGNISKSNTTVIFINQIREKIGVMFGNPETTTGGNALKF 218
RecA COG0468
RecA/RadA recombinase [Replication, recombination and repair];
1-210 9.77e-161

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


Pssm-ID: 440236 [Multi-domain]  Cd Length: 351  Bit Score: 447.31  E-value: 9.77e-161
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   1 ALAAALAQIEKQFGKGSVMRLGAgEAVEDIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLG 80
Cdd:COG0468   13 ALEAALSQIEKQFGKGSIMRLGD-KARQDVEVISTGSLALDIALGVGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAG 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  81 GTAAFIDAEHALDIQYAGKLGVNVNDLLVSQPDTGEQALEIADALVRSGSIDMIVIDSVAALVPKAEIEGEMGDSLPGLQ 160
Cdd:COG0468   92 GIAAFIDAEHALDPEYAKKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQ 171

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 567856067 161 ARLMSQALRKLTGTIKRTNCLVIFINQIRMKIGVMFGNPETTTGGNALKF 210
Cdd:COG0468  172 ARLMSQALRKLTGAISKSNTTVIFINQLREKIGVMFGNPETTTGGNALKF 221
RecA pfam00154
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ...
 1-210 2.25e-146

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: 407.56  E-value: 2.25e-146
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067    1 ALAAALAQIEKQFGKGSVMRLGaGEAVEDIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLG 80
Cdd:pfam00154   2 ALEAALKQIEKQFGKGSIMKLG-DEKKLDVETISTGSLALDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKAG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   81 GTAAFIDAEHALDIQYAGKLGVNVNDLLVSQPDTGEQALEIADALVRSGSIDMIVIDSVAALVPKAEIEGEMGDSLPGLQ 160
Cdd:pfam00154  81 GTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADMLVRSGAIDLIVVDSVAALVPKAEIEGEMGDSHVGLQ 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 567856067  161 ARLMSQALRKLTGTIKRTNCLVIFINQIRMKIGVMFGNPETTTGGNALKF 210
Cdd:pfam00154 161 ARLMSQALRKLTGSISKSNTTVIFINQIREKIGVMFGNPETTTGGRALKF 210
tigrfam_recA TIGR02012
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization ...
 1-210 4.30e-145

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: 406.76  E-value: 4.30e-145
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067    1 ALAAALAQIEKQFGKGSVMRLGAgEAVEDIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLG 80
Cdd:TIGR02012   5 ALEAALAQIEKQFGKGSIMRLGE-KTVMDVETISTGSLALDLALGVGGLPKGRIIEIYGPESSGKTTLALHAIAEAQKAG 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   81 GTAAFIDAEHALDIQYAGKLGVNVNDLLVSQPDTGEQALEIADALVRSGSIDMIVIDSVAALVPKAEIEGEMGDSLPGLQ 160
Cdd:TIGR02012  84 GTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDIIVVDSVAALVPKAEIEGEMGDSHVGLQ 163

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 567856067  161 ARLMSQALRKLTGTIKRTNCLVIFINQIRMKIGVMFGNPETTTGGNALKF 210
Cdd:TIGR02012 164 ARLMSQALRKLTGALSKSNTTAIFINQIREKIGVMFGNPETTTGGNALKF 213
RecA cd00983
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 29-210 1.78e-131

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: 368.81  E-value: 1.78e-131
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  29 DIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAEHALDIQYAGKLGVNVNDLL 108
Cdd:cd00983    1 DVEVIPTGSLSLDIALGIGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKLGGTAAFIDAEHALDPEYAKKLGVDIDNLL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 109 VSQPDTGEQALEIADALVRSGSIDMIVIDSVAALVPKAEIEGEMGDSLPGLQARLMSQALRKLTGTIKRTNCLVIFINQI 188
Cdd:cd00983   81 VSQPDTGEQALEIADTLIRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSLSKSKTTVIFINQL 160

                        170       180
                 ....*....|....*....|..
gi 567856067 189 RMKIGVMFGNPETTTGGNALKF 210
Cdd:cd00983  161 REKIGVMFGNPETTTGGNALKF 182
recA PRK09519
intein-containing recombinase RecA;
1-210 2.85e-101

intein-containing recombinase RecA;


Pssm-ID: 77219 [Multi-domain]  Cd Length: 790  Bit Score: 309.72  E-value: 2.85e-101
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   1 ALAAALAQIEKQFGKGSVMRLGaGEAVEDIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLG 80
Cdd:PRK09519  10 ALELAVAQIEKSYGKGSVMRLG-DEARQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAG 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  81 GTAAFIDAEHALDIQYAGKLGVNVNDLLVSQPDTGEQALEIADALVRSGSIDMIVIDSVAALVPKAEIEGEMGDSLPGLQ 160
Cdd:PRK09519  89 GVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGALDIVVIDSVAALVPRAELEGEMGDSHVGLQ 168

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 567856067 161 ARLMSQALRKLTGTIKRTNCLVIFINQIRMKIGVMFGNPETTTGGNALKF 210
Cdd:PRK09519 169 ARLMSQALRKMTGALNNSGTTAIFINQLRDKIGVMFGSPETTTGGKALKF 218
RecA-like cd01393
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 52-210 2.35e-47

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: 153.66  E-value: 2.35e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  52 GRVVEIYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAEHALDIQYA-----------GKLGVNVNDLLVSQPDTGEQALE 120
Cdd:cd01393    1 GKITEIYGPPGSGKTQLALQLAANALLLGGGVVWIDTEGAFPPSRLvqileaspsseLELAEALSRLLYFRPPDTLAHLL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 121 IADALVRSGS----IDMIVIDSVAALVPKAEIEGEMGDSLPGLQARLMSQALRKLTGTIKRTNCLVIFINQIRMKIGVMF 196
Cdd:cd01393   81 ALDSLPESLFpppnTSLVVVDSVSALFRKAFPRGGDGDSSSSLRARLLSQLARALQKLAAQFNLAVVVTNQVTTKIRGGS 160

                        170
                 ....*....|....*
gi 567856067 197 G-NPETTTGGNALKF 210
Cdd:cd01393  161 GaSLVPPALGNTWEH 175
archRadB cd01394
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ...
 33-193 1.04e-20

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: 85.83  E-value: 1.04e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  33 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAEhALDI----QYAG-KLGVNVNDL 107
Cdd:cd01394    1 LSTGSKSLDSLLG-GGVERGTITQIYGPPGSGKTNICLQLAVEAAKQGKKVVYIDTE-GLSPerfqQIAGeRFESIASNI 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 108 LVSQP-DTGEQALEIADA--LVRSGSIDMIVIDSVAALVpKAEiegEMGDSlpGLQARLMSQaLRKLTGTIKRTNCLVIF 184
Cdd:cd01394   79 IVFEPySFDEQGVAIQEAekLLKSDKVDLVVVDSATALY-RLE---LGDDS--EANRELSRQ-MSKLLSIARKYDIPVVI 151


                 ....*....
gi 567856067 185 INQIRMKIG 193
Cdd:cd01394  152 TNQVYSDID 160
RAD55 COG0467
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
33-200 5.03e-15

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


Pssm-ID: 440235 [Multi-domain]  Cd Length: 221  Bit Score: 70.71  E-value: 5.03e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  33 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAEHALD--IQYAGKLGVNVNDLLVS 110
Cdd:COG0467    2 VPTGIPGLDELLG-GGLPRGSSTLLSGPPGTGKTTLALQFLAEGLRRGEKGLYVSFEESPEqlLRRAESLGLDLEEYIES 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 111 -------------QPDTGEQALEIADAlVRSGSIDMIVIDSVAALVpkaeiegemgDSLPGLQARLmsQALRKLTGTIKR 177
Cdd:COG0467   81 gllriidlspeelGLDLEELLARLREA-VEEFGAKRVVIDSLSGLL----------LALPDPERLR--EFLHRLLRYLKK 147

                        170       180
                 ....*....|....*....|...
gi 567856067 178 TNCLVIFINQIRMKIGVMFGNPE 200
Cdd:COG0467  148 RGVTTLLTSETGGLEDEATEGGL 170
radB PRK09361
DNA repair and recombination protein RadB; Provisional
 30-193 1.15e-14

DNA repair and recombination protein RadB; Provisional


Pssm-ID: 236482 [Multi-domain]  Cd Length: 225  Bit Score: 69.89  E-value: 1.15e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  30 IQVVSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAEhALDI----QYAGKLGVNV- 104
Cdd:PRK09361   2 DERLPTGCKMLDELLG-GGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE-GLSPerfkQIAGEDFEELl 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 105 NDLLVSQP-DTGEQALEIADA--LVRSgSIDMIVIDSVAALVpKAEIEGEMGDSLpgLQARLMSQaLRKLTGTIKRTNCL 181
Cdd:PRK09361  80 SNIIIFEPsSFEEQSEAIRKAekLAKE-NVGLIVLDSATSLY-RLELEDEEDNSK--LNRELGRQ-LTHLLKLARKHDLA 154

                        170
                 ....*....|..
gi 567856067 182 VIFINQIRMKIG 193
Cdd:PRK09361 155 VVITNQVYSDID 166
recomb_radB TIGR02237
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ...
 40-193 5.99e-13

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: 64.74  E-value: 5.99e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   40 LDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAEhALDI----QYAGKLGVNVND-LLVSQP-- 112
Cdd:TIGR02237   1 IDELLG-GGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTE-GLSPerfkQIAEDRPERALSnFIVFEVfd 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  113 -DTGEQALEIADALVRSGSIDMIVIDSVAALVpKAEIEGEMGDSLPGLQARlmsqaLRKLTGTIKRTNCLVIFINQIRMK 191
Cdd:TIGR02237  79 fDEQGVAIQKTSKFIDRDSASLVVVDSFTALY-RLELSDDRISRNRELARQ-----LTLLLSLARKKNLAVVITNQVYTD 152


                  ..
gi 567856067  192 IG 193
Cdd:TIGR02237 153 VN 154
radA PRK04301
DNA repair and recombination protein RadA; Validated
 28-208 9.52e-12

DNA repair and recombination protein RadA; Validated


Pssm-ID: 235273 [Multi-domain]  Cd Length: 317  Bit Score: 62.59  E-value: 9.52e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  28 EDIQVVSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQK------LGGTAAFIDAEHALD----IQYA 97
Cdd:PRK04301  79 KNVGKITTGSKELDELLG-GGIETQSITEFYGEFGSGKTQICHQLAVNVQLpeekggLEGKAVYIDTEGTFRperiEQMA 157

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  98 GKLGVNVNDLL----VSQP-DTGEQAL--EIADALVRSG-SIDMIVIDSVAALVpKAEIEGEmgDSLPGLQARLMSQ--A 167
Cdd:PRK04301 158 EALGLDPDEVLdnihVARAyNSDHQMLlaEKAEELIKEGeNIKLVIVDSLTAHF-RAEYVGR--GNLAERQQKLNKHlhD 234

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 567856067 168 LRKLTGTIkrtNCLVIFINQIRMKIGVMFGNPETTTGGNAL 208
Cdd:PRK04301 235 LLRLADLY---NAAVVVTNQVMARPDAFFGDPTQPIGGHIL 272
XRCC3 cd19491
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ...
 40-188 1.07e-11

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: 61.92  E-value: 1.07e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  40 LDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQ------KLGGTAAFIDAEHALDIQ----------------YA 97
Cdd:cd19491    1 LDELLG-GGIPVGGITEIAGESGAGKTQLCLQLALTVQlprelgGLGGGAVYICTESSFPSKrlqqlasslpkryhleKA 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  98 GKLGVNVNDLLVSQPDTGEQAL-EIADALVRSGSIDMIVIDSVAALVpKAEIEGEMGDSLpgLQARLMSQALRKLTGTIK 176
Cdd:cd19491   80 KNFLDNIFVEHVADLETLEHCLnYQLPALLERGPIRLVVIDSIAALF-RSEFDTSRSDLV--ERAKYLRRLADHLKRLAD 156

                        170
                 ....*....|..
gi 567856067 177 RTNCLVIFINQI 188
Cdd:cd19491  157 KYNLAVVVVNQV 168
archRadA cd19515
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ...
 33-208 3.96e-11

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: 60.07  E-value: 3.96e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  33 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQK------LGGTAAFIDAEHALD----IQYAGKLGV 102
Cdd:cd19515    1 ISTGSKELDKLLG-GGIETQAITEVFGEFGSGKTQLCHQLAVNVQLppeeggLNGKAVYIDTENTFRperiMQMAKALGL 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 103 NVNDLL----VSQP-DTGEQAL---EIADALVRSGSIDMIVIDSVAALVpKAEIEGEmgDSLPGLQARLmSQALRKLTGT 174
Cdd:cd19515   80 DPDEVLdniyVARAyNSNHQMLlveKAEDLIKEGNNIKLLIVDSLTSHF-RAEYVGR--GTLAERQQKL-NKHLHDLHRL 155

                        170       180       190
                 ....*....|....*....|....*....|....
gi 567856067 175 IKRTNCLVIFINQIRMKIGVMFGNPETTTGGNAL 208
Cdd:cd19515  156 ADLYNIAVLVTNQVMAKPDAFFGDPTQAIGGHIL 189
Rad51B cd19493
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 41-193 6.55e-11

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: 59.64  E-value: 6.55e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  41 DIALGvGGLPRGRVVEIYGPESSGKT----TLTLQVVAEMQKLGGTAA--FIDAEHALDIQ---------YAGKLGVNVN 105
Cdd:cd19493    1 DTALA-GGLPLGAITEITGASGSGKTqfalTLASSAAMPARKGGLDGGvlYIDTESKFSAErlaeiaearFPEAFSGFME 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 106 D----------LLVSQPDTGEQALEIADAL---VRSGSIDMIVIDSVAALVPKaeiegEMGDSLPGLQARlmSQALRKLT 172
Cdd:cd19493   80 EneraeemlkrVAVVRVTTLAQLLERLPNLeehILSSGVRLVVIDSIAALVRR-----EFGGSDGEVTER--HNALAREA 152

                        170       180
                 ....*....|....*....|....*
gi 567856067 173 GTIKRT----NCLVIFINQIRMKIG 193
Cdd:cd19493  153 SSLKRLaeefRIAVLVTNQATTHFG 177
KaiC-like cd01124
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ...
 33-189 1.99e-10

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: 58.04  E-value: 1.99e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  33 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAEHALD--IQYAGKLGVN------V 104
Cdd:cd01124    1 VKTGIPGLDELLG-GGIPKGSVTLLTGGPGTGKTLFGLQFLYAGAKNGEPGLFFTFEESPErlLRNAKSFGWDfdemedE 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 105 NDLLVSQPDTGEQALEIADAL-------VRSGSIDMIVIDSVAALvpkaeiegemgdSLPGLQARLMSQALRKLTGTIKR 177
Cdd:cd01124   80 GKLIIVDAPPTEAGRFSLDELlsrilsiIKSFKAKRVVIDSLSGL------------RRAKEDQMRARRIVIALLNELRA 147

                        170
                 ....*....|..
gi 567856067 178 TNCLVIFINQIR 189
Cdd:cd01124  148 AGVTTIFTSEMR 159
COG4544 COG4544
Uncharacterized conserved protein [Function unknown];
20-137 2.37e-10

Uncharacterized conserved protein [Function unknown];


Pssm-ID: 443609 [Multi-domain]  Cd Length: 230  Bit Score: 58.02  E-value: 2.37e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  20 RLGAGEAVEDIQVVSTGSLGLDIALGVGGLPRGRVVEIYGPE-SSGKTTLTLQVVAEMQKLGGTAAFIDAEHALdiqYA- 97
Cdd:COG4544   16 WRGEGLAAAARAVLPTGFAALDAALPGGGLPRGALHEILGPApGIGELGLLLPLLARLAQAGGPVLWIAPPYDL---YAp 92

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 567856067  98 --GKLGVNVNDLLVSQPDTGEQALEIADALVRSGSIDMIVID 137
Cdd:COG4544   93 glAAAGLDPERLLLVRARRPADALWAAEEALRSGACGAVVAW 134
Rad51 pfam08423
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ...
 33-208 2.63e-10

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: 58.08  E-value: 2.63e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   33 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL--TLQVVA----EMQKLGGTAAFIDAEHALD----IQYAGKLGV 102
Cdd:pfam08423  19 ITTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLchTLCVTCqlplEMGGGEGKALYIDTEGTFRperlVAIAERYGL 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  103 NVNDLLVSQP-------DTGEQALEIADALVRSGSIDMIVIDSVAALVpKAEIEGEmGDslpgLQARLM--SQALRKLTG 173
Cdd:pfam08423  98 DPEDVLDNVAyaraynsEHQMQLLQQAAAMMSESRFALLIVDSATALY-RTDFSGR-GE----LAERQQhlAKFLRTLQR 171

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 567856067  174 TIKRTNCLVIFINQIRMKIG---VMF-GNPETTTGGNAL 208
Cdd:pfam08423 172 LADEFGVAVVITNQVVAQVDgaaGMFsGDPKKPIGGHIM 210
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 51-193 8.77e-10

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: 55.07  E-value: 8.77e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067    51 RGRVVEIYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAEHALDIQYAGKLGVNVNDLLVSqpDTGEQALEIADALVRSGS 130
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS--GSGELRLRLALALARKLK 78

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 567856067   131 IDMIVIDSVAALVPKAEiegemgdslpgLQARLMSQALRKLTGTIKRTNCLVIFINQIRMKIG 193
Cdd:smart00382  79 PDVLILDEITSLLDAEQ-----------EALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLG 130
Rad51C cd19492
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 52-193 7.97e-09

RAD51C recombinase; RAD51C 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. RAD51C, together with the other RAD51 paralogs, RAD51B, RAD51D, XRCC3, and XRCC2, helps recruit RAD51 to the break site. Additionally, RAD51C acts as a mediator in the early steps of DNA damage signaling.


Pssm-ID: 410900 [Multi-domain]  Cd Length: 172  Bit Score: 53.00  E-value: 7.97e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  52 GRVVEIYGPESSGKTTLTLQVVAEMQ------KLGGTAAFIDAEHALDIQYagklgVNVNDLlvsqpdtgEQALEIADAL 125
Cdd:cd19492    1 GKITEICGVPGVGKTQLCMQLAVNVQipkcfgGLAGEAIYIDTEGSFNIHY-----FRVHDY--------VELLALINSL 67

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 567856067 126 ---VRSGS-IDMIVIDSVAALVpKAEIEGemgdslPGLQARLMSQALRKLTGTIKRTNCLVIFINQIRMKIG 193
Cdd:cd19492   68 pkfLEDHPkVKLIVVDSIAFPF-RHDFDD------LAQRTRLLNGLAQLLHSLARQHNLAVVLTNQVTTKIS 132
ATPase pfam06745
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ...
 33-190 1.18e-08

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: 53.40  E-value: 1.18e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   33 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQ-VVAEMQKLGGTAAFIDA-EHALDI-QYAGKLGVNVNDL-- 107
Cdd:pfam06745   1 VKTGIPGLDEILK-GGFPEGRVVLITGGPGTGKTIFGLQfLYNGALKYGEPGVFVTLeEPPEDLrENARSFGWDLEKLee 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  108 --------LVSQP----------DTGEQALEIADAlVRSGSIDMIVIDSVAALvpkAEIEGEMgdslpglQARlmsQALR 169
Cdd:pfam06745  80 egklaiidASTSGigiaevedrfDLEELIERLREA-IREIGAKRVVIDSITTL---FYLLKPA-------VAR---EILR 145

                         170       180
                  ....*....|....*....|.
gi 567856067  170 KLTGTIKRTNCLVIFINQIRM 190
Cdd:pfam06745 146 RLKRVLKGLGVTAIFTSEKPS 166
PLN03186 PLN03186
DNA repair protein RAD51 homolog; Provisional
 28-188 5.09e-08

DNA repair protein RAD51 homolog; Provisional


Pssm-ID: 178728 [Multi-domain]  Cd Length: 342  Bit Score: 52.04  E-value: 5.09e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  28 EDIQVVSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL--TLQVVAEM--QKLGGT--AAFIDAEHALD----IQYA 97
Cdd:PLN03186 100 QEIIQITTGSRELDKILE-GGIETGSITEIYGEFRTGKTQLchTLCVTCQLplDQGGGEgkAMYIDTEGTFRpqrlIQIA 178

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  98 GKLGVNVNDLL----VSQPDTGEQALEIadaLVRSGSI------DMIVIDSVAALVpKAEIEGEmGDslpgLQAR--LMS 165
Cdd:PLN03186 179 ERFGLNGADVLenvaYARAYNTDHQSEL---LLEAASMmaetrfALMIVDSATALY-RTEFSGR-GE----LSARqmHLG 249

                        170       180
                 ....*....|....*....|...
gi 567856067 166 QALRKLTGTIKRTNCLVIFINQI 188
Cdd:PLN03186 250 KFLRSLQRLADEFGVAVVITNQV 272
RepA COG3598
RecA-family ATPase [Replication, recombination and repair];
49-185 7.18e-08

RecA-family ATPase [Replication, recombination and repair];


Pssm-ID: 442817 [Multi-domain]  Cd Length: 313  Bit Score: 51.44  E-value: 7.18e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  49 LPRGRVVEIYGPESSGKTTLTLQVVAEMQK----LG-----GTAAFIDAE-HALDIQ-----YAGKLGVNVNDL------ 107
Cdd:COG3598   10 LPEGGVTLLAGPPGTGKSFLALQLAAAVAAggpwLGrrvppGKVLYLAAEdDRGELRrrlkaLGADLGLPFADLdgrlrl 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 108 --LVSQPDTGEQALEIADALVRSGsIDMIVIDSVAALVPKAEIEGEmgdslpglQARLMSQALRKLtgtIKRTNCLVIFI 185
Cdd:COG3598   90 lsLAGDLDDTDDLEALERAIEEEG-PDLVVIDPLARVFGGDENDAE--------EMRAFLNPLDRL---AERTGAAVLLV 157
Rad51_DMC1_archRadA cd01123
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ...
 33-208 1.08e-07

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: 50.61  E-value: 1.08e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  33 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL------TLQVVAEMQKLGGTAAFIDAEHALD----IQYAGKLGV 102
Cdd:cd01123    1 ITTGSKELDKLLG-GGIETGSITEMFGEFRTGKTQLchtlavTCQLPIDRGGGEGKAIYIDTEGTFRperlRAIAQRFGL 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 103 NVNDLL-------VSQPDTGEQALEIADALVRSGSIDMIVIDSVAALVpKAEIEGEmGDslpgLQARLM--SQALRKLTG 173
Cdd:cd01123   80 DPDDVLdnvayarAFNSDHQTQLLDQAAAMMVESRFKLLIVDSATALY-RTDYSGR-GE----LSARQMhlAKFLRMLQR 153

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 567856067 174 TIKRTNCLVIFINQIRMKIG---VMFGNPETTTGGNAL 208
Cdd:cd01123  154 LADEFGVAVVVTNQVVAQVDgamMFAADPKKPIGGNIL 191
RadA_SMS_N cd01121
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ...
 18-185 1.09e-07

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: 50.61  E-value: 1.09e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  18 VMRLGAGEAvEDIQVVSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAEHALDiQY- 96
Cdd:cd01121   50 PLPLSDVEA-EEEERISTGIGELDRVLG-GGLVPGSVVLIGGDPGIGKSTLLLQVAARLAQRGGKVLYVSGEESLS-QIk 126

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  97 --AGKLGVNVNDLLVsqpdTGEQALEIADALVRSGSIDMIVIDSVAALVPKAEiegemgDSLPG--LQARLMSQALRKLT 172
Cdd:cd01121  127 lrAERLGLGSDNLYL----LAETNLEAILAEIEELKPSLVVIDSIQTVYSPEL------TSSPGsvSQVRECAAELLRLA 196

                        170
                 ....*....|...
gi 567856067 173 gtiKRTNCLVIFI 185
Cdd:cd01121  197 ---KETGIPVFLV 206
XRCC2 cd19490
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ...
 52-193 2.34e-07

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: 49.65  E-value: 2.34e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  52 GRVVEIYGPESSGKTTLTLQVVA-----------EMQKLGGTAAFIDAEHALDI----QYAGKLGVNVNDLLVSQPDTGE 116
Cdd:cd19490    1 GDVIEITGPSGSGKTELLYHLAArcilpsswggvPLGGLEAAVVFIDTDGRFDIlrlrSILEARIRAAIQAANSSDDEED 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 117 QALEIADALVR----------------------------SGSIDMIVIDSVAALVPKAEIEGEMGDSLPGLQARLM---S 165
Cdd:cd19490   81 VEEIARECLQRlhifrchsslqllatllslenyllslsaNPELGLLLIDSISAFYWQDRFSAELARAAPLLQEAALraiL 160

                        170       180
                 ....*....|....*....|....*...
gi 567856067 166 QALRKLTgtiKRTNCLVIFINQIRMKIG 193
Cdd:cd19490  161 RELRRLR---RRFQLVVIATKQALFPGK 185
PLN03187 PLN03187
meiotic recombination protein DMC1 homolog; Provisional
 10-208 4.48e-07

meiotic recombination protein DMC1 homolog; Provisional


Pssm-ID: 215620 [Multi-domain]  Cd Length: 344  Bit Score: 49.39  E-value: 4.48e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  10 EKQFGKGSVMRLGAGEAVEDIQVVSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL------TLQVVAEMQKLGGTA 83
Cdd:PLN03187  85 EKLLNQGFITGSDALLKRKSVVRITTGSQALDELLG-GGIETRCITEAFGEFRSGKTQLahtlcvTTQLPTEMGGGNGKV 163

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  84 AFIDAEHALD----IQYAGKLGVN----VNDLLVSQPDTGEQ---ALEIADALVRSGSIDMIVIDSVAALVPKAEI-EGE 151
Cdd:PLN03187 164 AYIDTEGTFRpdriVPIAERFGMDadavLDNIIYARAYTYEHqynLLLGLAAKMAEEPFRLLIVDSVIALFRVDFTgRGE 243

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 567856067 152 MGDSlpglQARLmSQALRKLTGTIKRTNCLVIFINQIRMKIG--VMFGNPETTTGGNAL 208
Cdd:PLN03187 244 LAER----QQKL-AQMLSRLTKIAEEFNVAVYMTNQVIADPGggMFISDPKKPAGGHVL 297
Rad51 cd19513
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ...
 33-206 1.03e-06

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: 47.70  E-value: 1.03e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  33 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL------TLQVVAEMQKLGGTAAFIDAEHALD----IQYAGKLGV 102
Cdd:cd19513    1 ITTGSKELDKLLG-GGIETGSITELFGEFRTGKTQLchtlavTCQLPIDQGGGEGKALYIDTEGTFRperlLAIAERYGL 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 103 NVNDLL--VS-----QPDTGEQALEIADALVRSGSIDMIVIDSVAALVpKAEIEGEmGDslpgLQARLM--SQALRKLTG 173
Cdd:cd19513   80 NGEDVLdnVAyarayNTDHQMQLLIQASAMMAESRYALLIVDSATALY-RTDYSGR-GE----LSARQMhlAKFLRMLQR 153

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 567856067 174 TIKRTNCLVIFINQIRMKI--GVMF-GNPETTTGGN 206
Cdd:cd19513  154 LADEFGVAVVITNQVVAQVdgAAMFaGDPKKPIGGN 189
DMC1 cd19514
homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in ...
 33-208 1.14e-06

homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in meiosis. It assembles at the sites of programmed DNA double-strand breaks and carries out a search for allelic DNA sequences located on homologous chromatids. It forms octameric rings.


Pssm-ID: 410922 [Multi-domain]  Cd Length: 236  Bit Score: 47.74  E-value: 1.14e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  33 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL--TLQVVAEMQKL----GGTAAFIDAEHALD----IQYAGKLGV 102
Cdd:cd19514    1 ISTGSTELDKLLG-GGIESMSITEVFGEFRTGKTQLshTLCVTAQLPGSmgggGGKVAYIDTEGTFRpdriRPIAERFGV 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 103 N----VNDLLVSQPDTGEQALEIADAL----VRSGSIDMIVIDSVAALVpKAEI--EGEMGDSlpglQARLmSQALRKLT 172
Cdd:cd19514   80 DhdavLDNILYARAYTSEHQMELLDYVaakfHEEAVFRLLIIDSIMALF-RVDFsgRGELAER----QQKL-AQMLSRLQ 153

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 567856067 173 GTIKRTNCLVIFINQIRMKIG--VMF-GNPETTTGGNAL 208
Cdd:cd19514  154 KISEEYNVAVFITNQVTADPGaaMTFqADPKKPIGGHIL 192
RecA-like_superfamily cd01120
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ...
 55-209 2.48e-06

RecA-like_NTPases; RecA-like NTPases. This superfamily 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: 410865 [Multi-domain]  Cd Length: 119  Bit Score: 44.80  E-value: 2.48e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  55 VEIYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAehaLDIqyagklgvnvndllvsqpdtgeqALEIADALVRSGSIDMI 134
Cdd:cd01120    1 ILITGPPGSGKTTLLLQFAEQALLSDEPVIFISF---LDT-----------------------ILEAIEDLIEEKKLDII 54

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 567856067 135 VIDSVAALVPKaeiegemgdsLPGLQARLMSQALRKLTGTIKRTNCLVIFINQIRMKIGVMFGNPETTTGGNALK 209
Cdd:cd01120   55 IIDSLSSLARA----------SQGDRSSELLEDLAKLLRAARNTGITVIATIHSDKFDIDRGGSSNDERLLKSLR 119
KaiC-like_N cd19488
N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ...
 33-86 4.32e-06

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: 45.80  E-value: 4.32e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 567856067  33 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLGGTAAFI 86
Cdd:cd19488    1 ISTGIPGLDDILR-GGLPPRRLYLVEGAPGTGKTTLALQFLLEGAANGETGLYI 53
recomb_RAD51 TIGR02239
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ...
 29-206 1.15e-05

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: 45.10  E-value: 1.15e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   29 DIQVVSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL------TLQVVAEMQKLGGTAAFIDAEHALD----IQYAG 98
Cdd:TIGR02239  74 EVIQLTTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLchtlavTCQLPIDQGGGEGKALYIDTEGTFRperlLAIAE 152

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   99 KLGVNVNDLL--VS-----QPDTGEQALEIADALVRSGSIDMIVIDSVAALVpKAEIEGEmGDslpgLQARLMSQA--LR 169
Cdd:TIGR02239 153 RYGLNPEDVLdnVAyarayNTDHQLQLLQQAAAMMSESRFALLIVDSATALY-RTDFSGR-GE----LSARQMHLArfLR 226

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|.
gi 567856067  170 KLTGTIKRTNCLVIFINQIRMKI---GVMF-GNPETTTGGN 206
Cdd:TIGR02239 227 SLQRLADEFGVAVVITNQVVAQVdgaGSMFaGDPKKPIGGN 267
recomb_DMC1 TIGR02238
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ...
 32-208 2.02e-05

meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.


Pssm-ID: 131292 [Multi-domain]  Cd Length: 313  Bit Score: 44.38  E-value: 2.02e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   32 VVSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL--TLQVVA----EMQKLGGTAAFIDAEHALD----IQYAGKLG 101
Cdd:TIGR02238  77 KITTGSQALDGILG-GGIESMSITEVFGEFRCGKTQLshTLCVTAqlprEMGGGNGKVAYIDTEGTFRpdriRAIAERFG 155

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  102 VN----VNDLLVSQPDTGEQALEIAD---ALVRSGSIDMIVIDSVAALVpKAEIEGEmgDSLPGLQARLmSQALRKLTGT 174
Cdd:TIGR02238 156 VDpdavLDNILYARAYTSEHQMELLDylaAKFSEEPFRLLIVDSIMALF-RVDFSGR--GELSERQQKL-AQMLSRLNKI 231

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 567856067  175 IKRTNCLVIFINQIRMKIG--VMF-GNPETTTGGNAL 208
Cdd:TIGR02238 232 SEEFNVAVFVTNQVQADPGatMTFiADPKKPIGGHVL 268
PTZ00035 PTZ00035
Rad51 protein; Provisional
 33-208 1.03e-04

Rad51 protein; Provisional


Pssm-ID: 185407 [Multi-domain]  Cd Length: 337  Bit Score: 42.29  E-value: 1.03e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  33 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTL--TLQVVA----EMQKLGGTAAFIDAEHALD----IQYAGKLGV 102
Cdd:PTZ00035 100 ITTGSTQLDKLLG-GGIETGSITELFGEFRTGKTQLchTLCVTCqlpiEQGGGEGKVLYIDTEGTFRperiVQIAERFGL 178

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067 103 NVNDLL----VSQPDTGEQALEI---ADALVRSGSIDMIVIDSVAALVpKAEIEGEmGDslpgLQARLM--SQALRKLTG 173
Cdd:PTZ00035 179 DPEDVLdniaYARAYNHEHQMQLlsqAAAKMAEERFALLIVDSATALF-RVDYSGR-GE----LAERQQhlGKFLRALQK 252

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 567856067 174 TIKRTNCLVIFINQIRMKIG---VMFGNPETTTGGNAL 208
Cdd:PTZ00035 253 LADEFNVAVVITNQVMADVDgasMFVADPKKPIGGHII 290
Rad51D cd19489
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 47-143 1.39e-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: 41.08  E-value: 1.39e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  47 GGLPRGRVVEIYGPESSGKTTLTLQVVAEM-QKLGGTAAFID------AEHALDI-QYAGKLGVNVNDLL-------VSQ 111
Cdd:cd19489    2 GGLRTGEITELVGESSSGKTQLCLTAAANVaSRSGQNVLYIDtkssfsARRLAQIlKSRAQDAEEIDKALqrirvvrVFD 81

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 567856067 112 PDTGEQALEIADALVR------SGSIDMIVIDSVAALV 143
Cdd:cd19489   82 PYELLDLLEELRNTLSqqqenlYSRLKLVIIDSLSALI 119
AAA_25 pfam13481
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins.
 49-185 2.07e-04

AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins.


Pssm-ID: 463892 [Multi-domain]  Cd Length: 193  Bit Score: 40.83  E-value: 2.07e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   49 LPRGRVVEIYGPESSGKTTLTLQVVAEM-----------QKLGGTAAFIDAE----------HALDIQYAGKLGVNVNDL 107
Cdd:pfam13481  30 LPAGGLGLLAGAPGTGKTTLALDLAAAVatgkpwlggprVPEQGKVLYVSAEgpadelrrrlRAAGADLDLPARLLFLSL 109

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  108 LVSQP----DTGEQAL-----EIADALVRSGSIDMIVIDSVAALVPkaeiegemGDSLPGLQARLMSQALRKLtgtIKRT 178
Cdd:pfam13481 110 VESLPlfflDRGGPLLdadvdALEAALEEVEDPDLVVIDPLARALG--------GDENSNSDVGRLVKALDRL---ARRT 178


                  ....*..
gi 567856067  179 NCLVIFI 185
Cdd:pfam13481 179 GATVLLV 185
AAA_24 pfam13479
AAA domain; This AAA domain is found in a wide variety of presumed phage proteins.
 51-185 5.19e-04

AAA domain; This AAA domain is found in a wide variety of presumed phage proteins.


Pssm-ID: 433243  Cd Length: 199  Bit Score: 39.62  E-value: 5.19e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   51 RGRVVEIYGPESSGKTTLTLQVvaemqklgGTAAFIDAEHALDIQYAGKLGVNVNDLlvSQPDTGEQALEIADALVRsgS 130
Cdd:pfam13479   1 KKLKILIYGPSGIGKTTFAKTL--------PKPLFLDTEKGSKALDGDRFPDIVIRD--SWQDFLDAIDELTAAELA--D 68

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 567856067  131 IDMIVIDSVAALV-----------PKAEIEGEMGDSLP-GLQARLMSQALRKLTGTIKRtnclVIFI 185
Cdd:pfam13479  69 YKTIVIDTVDWLErlclayickqnGKGSSIEDGGYGKGyGELGEEFRRLLDALQELGKN----VIFT 131
PRK06067 PRK06067
flagellar accessory protein FlaH; Validated
 28-149 1.41e-03

flagellar accessory protein FlaH; Validated


Pssm-ID: 180381  Cd Length: 234  Bit Score: 38.41  E-value: 1.41e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  28 EDIQVVSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAEH------------ALDIQ 95
Cdd:PRK06067   2 GKKEIISTGNEELDRKLG-GGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENtsksylkqmesvKIDIS 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  96 --YA-GKLGV---NVNDLLVSqPDTGEQALEIADALVRSGSIDMIVIDSVAALVPKAEIE 149
Cdd:PRK06067  81 dfFLwGYLRIfplNTEGFEWN-STLANKLLELIIEFIKSKREDVIIIDSLTIFATYAEED 139
FlaH COG2874
Archaellum biogenesis ATPase ArlH/FlaH [Cell motility];
33-143 1.55e-03

Archaellum biogenesis ATPase ArlH/FlaH [Cell motility];


Pssm-ID: 442121  Cd Length: 230  Bit Score: 38.27  E-value: 1.55e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  33 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLG----------GTAAFIDAEHALDIQYA----- 97
Cdd:COG2874    3 ISTGNDELDKRLG-GGIPLGSLVLIEGENGTGKSVLSQQFAYGALENGlsvtyistelTTKEFIKQMKSLSYDISdyllr 81

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 567856067  98 GKLGVNVNDLLVSQPDTGE--QALE-----IADALVRSgsiDMIVIDSVAALV 143
Cdd:COG2874   82 GRLLFLPVHPLGFEWNSKQrkDLLKrlmkyIASNLWEA---DVIIIDSLSALL 131
ATPase_2 pfam01637
ATPase domain predominantly from Archaea; This family contain a conserved P-loop motif that is ...
 57-97 2.22e-03

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: 37.69  E-value: 2.22e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 567856067   57 IYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAEHALDIQYA 97
Cdd:pfam01637  25 IYGPEGCGKTALLRESIENLLDLGYYVIYYDPLRRYFISKL 65
KaiC-like_C cd19487
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ...
 33-140 2.89e-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: 37.28  E-value: 2.89e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067  33 VSTGSLGLDIALGvGGLPRGRVVEIYGPESSGKTTLTLQVVAEMQKLGGTAAFIDAEHALDI--QYAGKLGVNVNDLLvs 110
Cdd:cd19487    1 VSSGVPELDELLG-GGLERGTSTLLIGPAGVGKSTLALQFAKAAAARGERSVLFSFDESIGTlfERSEALGIDLRAMV-- 77

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 567856067 111 qpDTGEQALEIADAL--------------VRSGSIDMIVIDSVA 140
Cdd:cd19487   78 --EKGLLSIEQIDPAelspgefaqrvrtsVEQEDARVVVIDSLN 119
fbpC PRK11432
ferric ABC transporter ATP-binding protein;
6-89 5.34e-03

ferric ABC transporter ATP-binding protein;


Pssm-ID: 183133 [Multi-domain]  Cd Length: 351  Bit Score: 37.01  E-value: 5.34e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 567856067   6 LAQIEKQFGKGSVMrlgageavediqvvstGSLGLDIalgvgglPRGRVVEIYGPESSGKTTLtLQVVAEMQKLGGTAAF 85
Cdd:PRK11432   9 LKNITKRFGSNTVI----------------DNLNLTI-------KQGTMVTLLGPSGCGKTTV-LRLVAGLEKPTEGQIF 64


                 ....
gi 567856067  86 IDAE 89
Cdd:PRK11432  65 IDGE 68
NadR3 COG3172
Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase ...
 53-71 7.67e-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: 7.67e-03
                         10
                 ....*....|....*....
gi 567856067  53 RVVeIYGPESSGKTTLTLQ 71
Cdd:COG3172   10 KIV-LLGAESTGKTTLARA 27
 
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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