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Conserved domains on  [gi|944374708|gb|ALL71822|]
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RecA, partial [Aeromonas sp. MJ-80]

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
 1-199 4.42e-168

recombinase A; Provisional


:

Pssm-ID: 236476 [Multi-domain]  Cd Length: 349  Bit Score: 465.42  E-value: 4.42e-168
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   1 DIEAISTGSLSLDVALGIGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYAAKLGVNVDDLL 80
Cdd:PRK09354  37 DVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLL 116

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  81 ISQPDTGEQALEICDMLVRSNAVDVIIVDSVAALTPKAEIEGEMGDSHVGLQARLMSQALRKLTANIKNANCLCIFINQI 160
Cdd:PRK09354 117 VSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGNISKSNTTVIFINQI 196

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 944374708 161 RMKIGVMFGSPETTTGGNALKFYASVRLDIRRTGAIKEG 199
Cdd:PRK09354 197 REKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDG 235
 
Name Accession Description Interval E-value
recA PRK09354
recombinase A; Provisional
 1-199 4.42e-168

recombinase A; Provisional


Pssm-ID: 236476 [Multi-domain]  Cd Length: 349  Bit Score: 465.42  E-value: 4.42e-168
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   1 DIEAISTGSLSLDVALGIGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYAAKLGVNVDDLL 80
Cdd:PRK09354  37 DVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLL 116

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  81 ISQPDTGEQALEICDMLVRSNAVDVIIVDSVAALTPKAEIEGEMGDSHVGLQARLMSQALRKLTANIKNANCLCIFINQI 160
Cdd:PRK09354 117 VSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGNISKSNTTVIFINQI 196

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 944374708 161 RMKIGVMFGSPETTTGGNALKFYASVRLDIRRTGAIKEG 199
Cdd:PRK09354 197 REKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDG 235
RecA COG0468
RecA/RadA recombinase [Replication, recombination and repair];
1-199 3.94e-164

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


Pssm-ID: 440236 [Multi-domain]  Cd Length: 351  Bit Score: 455.40  E-value: 3.94e-164
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   1 DIEAISTGSLSLDVALGIGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYAAKLGVNVDDLL 80
Cdd:COG0468   40 DVEVISTGSLALDIALGVGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGIAAFIDAEHALDPEYAKKLGVDIDNLL 119

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  81 ISQPDTGEQALEICDMLVRSNAVDVIIVDSVAALTPKAEIEGEMGDSHVGLQARLMSQALRKLTANIKNANCLCIFINQI 160
Cdd:COG0468  120 VSQPDTGEQALEIAETLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGAISKSNTTVIFINQL 199

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 944374708 161 RMKIGVMFGSPETTTGGNALKFYASVRLDIRRTGAIKEG 199
Cdd:COG0468  200 REKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDG 238
RecA pfam00154
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ...
 1-199 2.10e-148

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: 412.18  E-value: 2.10e-148
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708    1 DIEAISTGSLSLDVALGIGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYAAKLGVNVDDLL 80
Cdd:pfam00154  29 DVETISTGSLALDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLL 108

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   81 ISQPDTGEQALEICDMLVRSNAVDVIIVDSVAALTPKAEIEGEMGDSHVGLQARLMSQALRKLTANIKNANCLCIFINQI 160
Cdd:pfam00154 109 VSQPDTGEQALEIADMLVRSGAIDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSISKSNTTVIFINQI 188

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 944374708  161 RMKIGVMFGSPETTTGGNALKFYASVRLDIRRTGAIKEG 199
Cdd:pfam00154 189 REKIGVMFGNPETTTGGRALKFYASVRLDIRRIGQIKQG 227
tigrfam_recA TIGR02012
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization ...
 1-199 4.27e-147

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: 411.38  E-value: 4.27e-147
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708    1 DIEAISTGSLSLDVALGIGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYAAKLGVNVDDLL 80
Cdd:TIGR02012  32 DVETISTGSLALDLALGVGGLPKGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARKLGVDIDNLL 111

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   81 ISQPDTGEQALEICDMLVRSNAVDVIIVDSVAALTPKAEIEGEMGDSHVGLQARLMSQALRKLTANIKNANCLCIFINQI 160
Cdd:TIGR02012 112 VSQPDTGEQALEIAETLVRSGAVDIIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGALSKSNTTAIFINQI 191

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 944374708  161 RMKIGVMFGSPETTTGGNALKFYASVRLDIRRTGAIKEG 199
Cdd:TIGR02012 192 REKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTVKQG 230
RecA cd00983
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 1-199 2.14e-146

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: 406.17  E-value: 2.14e-146
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   1 DIEAISTGSLSLDVALGIGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYAAKLGVNVDDLL 80
Cdd:cd00983    1 DVEVIPTGSLSLDIALGIGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKLGGTAAFIDAEHALDPEYAKKLGVDIDNLL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  81 ISQPDTGEQALEICDMLVRSNAVDVIIVDSVAALTPKAEIEGEMGDSHVGLQARLMSQALRKLTANIKNANCLCIFINQI 160
Cdd:cd00983   81 VSQPDTGEQALEIADTLIRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSLSKSKTTVIFINQL 160

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 944374708 161 RMKIGVMFGSPETTTGGNALKFYASVRLDIRRTGAIKEG 199
Cdd:cd00983  161 REKIGVMFGNPETTTGGNALKFYASVRLDIRRIELIKEG 199
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 24-192 5.74e-09

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: 52.76  E-value: 5.74e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708    24 GRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYAAKLGVNVDDLLISqpDTGEQALEICDMLVRSNAV 103
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS--GSGELRLRLALALARKLKP 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   104 DVIIVDSVAALTPKaeiegemgdshVGLQARLMSQALRKLTANIKNANCLCIFINQirmkigvmfgsPETTTGGNALKFY 183
Cdd:smart00382  80 DVLILDEITSLLDA-----------EQEALLLLLEELRLLLLLKSEKNLTVILTTN-----------DEKDLGPALLRRR 137


                   ....*....
gi 944374708   184 ASVRLDIRR 192
Cdd:smart00382 138 FDRRIVLLL 146
 
Name Accession Description Interval E-value
recA PRK09354
recombinase A; Provisional
 1-199 4.42e-168

recombinase A; Provisional


Pssm-ID: 236476 [Multi-domain]  Cd Length: 349  Bit Score: 465.42  E-value: 4.42e-168
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   1 DIEAISTGSLSLDVALGIGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYAAKLGVNVDDLL 80
Cdd:PRK09354  37 DVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLL 116

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  81 ISQPDTGEQALEICDMLVRSNAVDVIIVDSVAALTPKAEIEGEMGDSHVGLQARLMSQALRKLTANIKNANCLCIFINQI 160
Cdd:PRK09354 117 VSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGNISKSNTTVIFINQI 196

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 944374708 161 RMKIGVMFGSPETTTGGNALKFYASVRLDIRRTGAIKEG 199
Cdd:PRK09354 197 REKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDG 235
RecA COG0468
RecA/RadA recombinase [Replication, recombination and repair];
1-199 3.94e-164

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


Pssm-ID: 440236 [Multi-domain]  Cd Length: 351  Bit Score: 455.40  E-value: 3.94e-164
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   1 DIEAISTGSLSLDVALGIGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYAAKLGVNVDDLL 80
Cdd:COG0468   40 DVEVISTGSLALDIALGVGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGIAAFIDAEHALDPEYAKKLGVDIDNLL 119

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  81 ISQPDTGEQALEICDMLVRSNAVDVIIVDSVAALTPKAEIEGEMGDSHVGLQARLMSQALRKLTANIKNANCLCIFINQI 160
Cdd:COG0468  120 VSQPDTGEQALEIAETLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGAISKSNTTVIFINQL 199

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 944374708 161 RMKIGVMFGSPETTTGGNALKFYASVRLDIRRTGAIKEG 199
Cdd:COG0468  200 REKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDG 238
RecA pfam00154
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ...
 1-199 2.10e-148

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: 412.18  E-value: 2.10e-148
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708    1 DIEAISTGSLSLDVALGIGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYAAKLGVNVDDLL 80
Cdd:pfam00154  29 DVETISTGSLALDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLL 108

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   81 ISQPDTGEQALEICDMLVRSNAVDVIIVDSVAALTPKAEIEGEMGDSHVGLQARLMSQALRKLTANIKNANCLCIFINQI 160
Cdd:pfam00154 109 VSQPDTGEQALEIADMLVRSGAIDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSISKSNTTVIFINQI 188

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 944374708  161 RMKIGVMFGSPETTTGGNALKFYASVRLDIRRTGAIKEG 199
Cdd:pfam00154 189 REKIGVMFGNPETTTGGRALKFYASVRLDIRRIGQIKQG 227
tigrfam_recA TIGR02012
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization ...
 1-199 4.27e-147

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: 411.38  E-value: 4.27e-147
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708    1 DIEAISTGSLSLDVALGIGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYAAKLGVNVDDLL 80
Cdd:TIGR02012  32 DVETISTGSLALDLALGVGGLPKGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARKLGVDIDNLL 111

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   81 ISQPDTGEQALEICDMLVRSNAVDVIIVDSVAALTPKAEIEGEMGDSHVGLQARLMSQALRKLTANIKNANCLCIFINQI 160
Cdd:TIGR02012 112 VSQPDTGEQALEIAETLVRSGAVDIIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGALSKSNTTAIFINQI 191

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 944374708  161 RMKIGVMFGSPETTTGGNALKFYASVRLDIRRTGAIKEG 199
Cdd:TIGR02012 192 REKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTVKQG 230
RecA cd00983
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 1-199 2.14e-146

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: 406.17  E-value: 2.14e-146
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   1 DIEAISTGSLSLDVALGIGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYAAKLGVNVDDLL 80
Cdd:cd00983    1 DVEVIPTGSLSLDIALGIGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKLGGTAAFIDAEHALDPEYAKKLGVDIDNLL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  81 ISQPDTGEQALEICDMLVRSNAVDVIIVDSVAALTPKAEIEGEMGDSHVGLQARLMSQALRKLTANIKNANCLCIFINQI 160
Cdd:cd00983   81 VSQPDTGEQALEIADTLIRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSLSKSKTTVIFINQL 160

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 944374708 161 RMKIGVMFGSPETTTGGNALKFYASVRLDIRRTGAIKEG 199
Cdd:cd00983  161 REKIGVMFGNPETTTGGNALKFYASVRLDIRRIELIKEG 199
recA PRK09519
intein-containing recombinase RecA;
2-199 1.79e-99

intein-containing recombinase RecA;


Pssm-ID: 77219 [Multi-domain]  Cd Length: 790  Bit Score: 304.71  E-value: 1.79e-99
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   2 IEAISTGSLSLDVALGIGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYAAKLGVNVDDLLI 81
Cdd:PRK09519  38 ISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLV 117

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  82 SQPDTGEQALEICDMLVRSNAVDVIIVDSVAALTPKAEIEGEMGDSHVGLQARLMSQALRKLTANIKNANCLCIFINQIR 161
Cdd:PRK09519 118 SQPDTGEQALEIADMLIRSGALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALRKMTGALNNSGTTAIFINQLR 197

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 944374708 162 MKIGVMFGSPETTTGGNALKFYASVRLDIRRTGAIKEG 199
Cdd:PRK09519 198 DKIGVMFGSPETTTGGKALKFYASVRMDVRRVETLKDG 235
RecA-like cd01393
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 24-192 2.10e-54

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: 171.38  E-value: 2.10e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  24 GRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYA-----------AKLGVNVDDLLISQPDTGEQALE 92
Cdd:cd01393    1 GKITEIYGPPGSGKTQLALQLAANALLLGGGVVWIDTEGAFPPSRLvqileaspsseLELAEALSRLLYFRPPDTLAHLL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  93 ICDMLVRSNA----VDVIIVDSVAALTPKAEIEGEMGDSHVGLQARLMSQALRKLTANIKNANCLCIFINQIRMKIGVMF 168
Cdd:cd01393   81 ALDSLPESLFpppnTSLVVVDSVSALFRKAFPRGGDGDSSSSLRARLLSQLARALQKLAAQFNLAVVVTNQVTTKIRGGS 160

                        170       180
                 ....*....|....*....|....*
gi 944374708 169 G-SPETTTGGNALKFYASVRLDIRR 192
Cdd:cd01393  161 GaSLVPPALGNTWEHSVSTRLLLYR 185
archRadB cd01394
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ...
 5-195 6.25e-18

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: 78.12  E-value: 6.25e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   5 ISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEhALDP-----IYAAKLGVNVDDL 79
Cdd:cd01394    1 LSTGSKSLDSLLG-GGVERGTITQIYGPPGSGKTNICLQLAVEAAKQGKKVVYIDTE-GLSPerfqqIAGERFESIASNI 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  80 LISQP-DTGEQALEICDM--LVRSNAVDVIIVDSVAALTpKAEiegEMGDShvGLQARLMSQaLRKLTANIKNANCLCIF 156
Cdd:cd01394   79 IVFEPySFDEQGVAIQEAekLLKSDKVDLVVVDSATALY-RLE---LGDDS--EANRELSRQ-MSKLLSIARKYDIPVVI 151

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 944374708 157 INQIRMKIGVMFGSPettTGGNALKfYAS---VRLDIRRTGA 195
Cdd:cd01394  152 TNQVYSDIDDDRLKP---VGGTLLE-HWSkaiIRLEKSPPGL 189
RAD55 COG0467
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
5-172 5.95e-15

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


Pssm-ID: 440235 [Multi-domain]  Cd Length: 221  Bit Score: 70.33  E-value: 5.95e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   5 ISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPI--YAAKLGVNVDDLL-- 80
Cdd:COG0467    2 VPTGIPGLDELLG-GGLPRGSSTLLSGPPGTGKTTLALQFLAEGLRRGEKGLYVSFEESPEQLlrRAESLGLDLEEYIes 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  81 ----ISQPDTGEQALEICDML------VRSNAVDVIIVDSVAALtpkaeiEGEMGDShvglqaRLMSQALRKLTANIKNA 150
Cdd:COG0467   81 gllrIIDLSPEELGLDLEELLarlreaVEEFGAKRVVIDSLSGL------LLALPDP------ERLREFLHRLLRYLKKR 148

                        170       180
                 ....*....|....*....|..
gi 944374708 151 NCLCIFINQIRMKIGVMFGSPE 172
Cdd:COG0467  149 GVTTLLTSETGGLEDEATEGGL 170
radA PRK04301
DNA repair and recombination protein RadA; Validated
 1-192 3.49e-13

DNA repair and recombination protein RadA; Validated


Pssm-ID: 235273 [Multi-domain]  Cd Length: 317  Bit Score: 66.44  E-value: 3.49e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   1 DIEAISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQK------KGKTCAFVDAE------------- 61
Cdd:PRK04301  80 NVGKITTGSKELDELLG-GGIETQSITEFYGEFGSGKTQICHQLAVNVQLpeekggLEGKAVYIDTEgtfrperieqmae 158

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  62 -------HALDPIYAAKlGVNVDD--LLIsqpdtgEQALEICDmlvRSNAVDVIIVDSVAALTpKAEiegemgdsHVGL- 131
Cdd:PRK04301 159 algldpdEVLDNIHVAR-AYNSDHqmLLA------EKAEELIK---EGENIKLVIVDSLTAHF-RAE--------YVGRg 219

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 944374708 132 -----QARLMSQ--ALRKLtANIKnaNCLCIFINQIRMKIGVMFGSPETTTGGNALKFYASVRLDIRR 192
Cdd:PRK04301 220 nlaerQQKLNKHlhDLLRL-ADLY--NAAVVVTNQVMARPDAFFGDPTQPIGGHILGHTATFRIYLRK 284
recomb_radB TIGR02237
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ...
 12-192 7.74e-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: 64.36  E-value: 7.74e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   12 LDVALGiGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEhALDP-----IYAAKLGVNVDDLLISQP-D 85
Cdd:TIGR02237   1 IDELLG-GGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTE-GLSPerfkqIAEDRPERALSNFIVFEVfD 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   86 TGEQALEICDM--LVRSNAVDVIIVDSVAALTpKAEIEGEMGDSHVGLQARLmsQALRKLTANIKNAnclCIFINQIRMK 163
Cdd:TIGR02237  79 FDEQGVAIQKTskFIDRDSASLVVVDSFTALY-RLELSDDRISRNRELARQL--TLLLSLARKKNLA---VVITNQVYTD 152

                         170       180
                  ....*....|....*....|....*....
gi 944374708  164 IGVMFGSPettTGGNALKFYASVRLDIRR 192
Cdd:TIGR02237 153 VNNGTLRP---LGGHLLEHWSKVILRLEK 178
COG4544 COG4544
Uncharacterized conserved protein [Function unknown];
4-118 3.06e-12

Uncharacterized conserved protein [Function unknown];


Pssm-ID: 443609 [Multi-domain]  Cd Length: 230  Bit Score: 63.02  E-value: 3.06e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   4 AISTGSLSLDVALGIGGLPCGRIVEIYGPE-SSGKTTLTLQVIAEAQKKGKTCAFVDAEHALdpiYA---AKLGVNVDDL 79
Cdd:COG4544   28 VLPTGFAALDAALPGGGLPRGALHEILGPApGIGELGLLLPLLARLAQAGGPVLWIAPPYDL---YApglAAAGLDPERL 104

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 944374708  80 LISQPDTGEQALEICDMLVRSNAVDVIIVDsVAALTPKA 118
Cdd:COG4544  105 LLVRARRPADALWAAEEALRSGACGAVVAW-LERLDLTA 142
archRadA cd19515
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ...
 5-197 1.57e-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: 61.23  E-value: 1.57e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   5 ISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKK------GKTCAFVDAEHALDP----IYAAKLGV 74
Cdd:cd19515    1 ISTGSKELDKLLG-GGIETQAITEVFGEFGSGKTQLCHQLAVNVQLPpeegglNGKAVYIDTENTFRPerimQMAKALGL 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  75 NVDDLL-----ISQPDTGEQAL---EICDMLVRSNAVDVIIVDSVAALTpKAEI--EGEMGDSHVGLqARLMSQALRklT 144
Cdd:cd19515   80 DPDEVLdniyvARAYNSNHQMLlveKAEDLIKEGNNIKLLIVDSLTSHF-RAEYvgRGTLAERQQKL-NKHLHDLHR--L 155

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....
gi 944374708 145 ANIKNAnclCIFI-NQIRMKIGVMFGSPETTTGGNALKFYASVRLDIRRTGAIK 197
Cdd:cd19515  156 ADLYNI---AVLVtNQVMAKPDAFFGDPTQAIGGHILGHAATFRVYLRKGKGGK 206
radB PRK09361
DNA repair and recombination protein RadB; Provisional
 2-114 2.55e-11

DNA repair and recombination protein RadB; Provisional


Pssm-ID: 236482 [Multi-domain]  Cd Length: 225  Bit Score: 60.26  E-value: 2.55e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   2 IEAISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEhALDPIYAAKL-GVNVDDLL 80
Cdd:PRK09361   2 DERLPTGCKMLDELLG-GGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE-GLSPERFKQIaGEDFEELL 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 944374708  81 ----ISQP-DTGEQALEICDM--LVRSNaVDVIIVDSVAAL 114
Cdd:PRK09361  80 sniiIFEPsSFEEQSEAIRKAekLAKEN-VGLIVLDSATSL 119
Rad51_DMC1_archRadA cd01123
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ...
 5-192 5.43e-11

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: 59.47  E-value: 5.43e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   5 ISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTL--TLQV-----IAEAQKKGKtCAFVDAEHALDPI----YAAKLG 73
Cdd:cd01123    1 ITTGSKELDKLLG-GGIETGSITEMFGEFRTGKTQLchTLAVtcqlpIDRGGGEGK-AIYIDTEGTFRPErlraIAQRFG 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  74 VNVDDLL----ISQPDTGEQALEICD----MLVRSnAVDVIIVDSVAALTPKAEI-EGEMGDSHVGLqARLMSQALRklt 144
Cdd:cd01123   79 LDPDDVLdnvaYARAFNSDHQTQLLDqaaaMMVES-RFKLLIVDSATALYRTDYSgRGELSARQMHL-AKFLRMLQR--- 153

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 944374708 145 anIKNANCLCIFI-NQIRMKIG---VMFGSPETTTGGNALKFYASVRLDIRR 192
Cdd:cd01123  154 --LADEFGVAVVVtNQVVAQVDgamMFAADPKKPIGGNILAHASTTRLYLRK 203
Rad51 pfam08423
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ...
 5-192 1.60e-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: 58.47  E-value: 1.60e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708    5 ISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTL--TLQVIAEAQK-----KGKtCAFVDAEHALDPI----YAAKLG 73
Cdd:pfam08423  19 ITTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLchTLCVTCQLPLemgggEGK-ALYIDTEGTFRPErlvaIAERYG 96

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   74 VNVDDLLISQP-------DTGEQALEICDMLVRSNAVDVIIVDSVAALTpKAEIEGEmGDshvgLQARLM--SQALRKLt 144
Cdd:pfam08423  97 LDPEDVLDNVAyaraynsEHQMQLLQQAAAMMSESRFALLIVDSATALY-RTDFSGR-GE----LAERQQhlAKFLRTL- 169

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 944374708  145 ANIKNANCLCIFI-NQIRMKIG---VMF-GSPETTTGGNALKFYASVRLDIRR 192
Cdd:pfam08423 170 QRLADEFGVAVVItNQVVAQVDgaaGMFsGDPKKPIGGHIMAHASTTRLSLRK 222
Rad51B cd19493
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 13-192 1.56e-09

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: 55.40  E-value: 1.56e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  13 DVALGiGGLPCGRIVEIYGPESSGKT----TLTLQVIAEAQKKGKT--CAFVDAEHALDP-----IYAAKLGVN------ 75
Cdd:cd19493    1 DTALA-GGLPLGAITEITGASGSGKTqfalTLASSAAMPARKGGLDggVLYIDTESKFSAerlaeIAEARFPEAfsgfme 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  76 --------VDDLLISQPDTGEQALEICDML---VRSNAVDVIIVDSVAALTPKaeiegEMGDSHVGLQARlmSQALRKLT 144
Cdd:cd19493   80 eneraeemLKRVAVVRVTTLAQLLERLPNLeehILSSGVRLVVIDSIAALVRR-----EFGGSDGEVTER--HNALAREA 152

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....
gi 944374708 145 ANIKN-ANCLCIFI---NQIRMKIGVMFGSPETTTG--GNALKFYASVRLDIRR 192
Cdd:cd19493  153 SSLKRlAEEFRIAVlvtNQATTHFGDAGDGSSGVTAalGDAWAHAVNTRLRLER 206
DMC1 cd19514
homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in ...
 5-192 2.46e-09

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: 55.06  E-value: 2.46e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   5 ISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTL--TLQVIAEAQKK-----GKTCaFVDAEHALDP----IYAAKLG 73
Cdd:cd19514    1 ISTGSTELDKLLG-GGIESMSITEVFGEFRTGKTQLshTLCVTAQLPGSmggggGKVA-YIDTEGTFRPdrirPIAERFG 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  74 VN----VDDLLISQPDTGEQALEICDMLVRSNAVD----VIIVDSVAAL-----TPKaeieGEMGDShvglQARLmSQAL 140
Cdd:cd19514   79 VDhdavLDNILYARAYTSEHQMELLDYVAAKFHEEavfrLLIIDSIMALfrvdfSGR----GELAER----QQKL-AQML 149

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 944374708 141 RKLTANIKNANcLCIFI-NQIRMKIG--VMFGS-PETTTGGNALKFYASVRLDIRR 192
Cdd:cd19514  150 SRLQKISEEYN-VAVFItNQVTADPGaaMTFQAdPKKPIGGHILAHASTTRISLRK 204
ATPase pfam06745
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ...
 5-192 5.27e-09

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: 54.17  E-value: 5.27e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708    5 ISTGSLSLDvALGIGGLPCGRIVEIYGPESSGKTTLTLQVIAE-AQKKGKTCAFVDA-EHALDPIYAAK-LGVNVDDLL- 80
Cdd:pfam06745   1 VKTGIPGLD-EILKGGFPEGRVVLITGGPGTGKTIFGLQFLYNgALKYGEPGVFVTLeEPPEDLRENARsFGWDLEKLEe 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   81 --------ISQPDTGEQALEICDML----------VRSNAVDVIIVDSVAALtpkAEIEGEMgdshvglQARlmsQALRK 142
Cdd:pfam06745  80 egklaiidASTSGIGIAEVEDRFDLeelierlreaIREIGAKRVVIDSITTL---FYLLKPA-------VAR---EILRR 146

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 944374708  143 LTANIKNANCLCIFINQIRMKigvmfgspETTTGGNALKFYAS---VRLDIRR 192
Cdd:pfam06745 147 LKRVLKGLGVTAIFTSEKPSG--------EGGIGGYGVEEFIVdgvIRLDLKE 191
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 24-192 5.74e-09

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: 52.76  E-value: 5.74e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708    24 GRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYAAKLGVNVDDLLISqpDTGEQALEICDMLVRSNAV 103
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS--GSGELRLRLALALARKLKP 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   104 DVIIVDSVAALTPKaeiegemgdshVGLQARLMSQALRKLTANIKNANCLCIFINQirmkigvmfgsPETTTGGNALKFY 183
Cdd:smart00382  80 DVLILDEITSLLDA-----------EQEALLLLLEELRLLLLLKSEKNLTVILTTN-----------DEKDLGPALLRRR 137


                   ....*....
gi 944374708   184 ASVRLDIRR 192
Cdd:smart00382 138 FDRRIVLLL 146
KaiC-like cd01124
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ...
 5-172 6.51e-09

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: 53.81  E-value: 6.51e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   5 ISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIY--AAKLGVNVD----- 77
Cdd:cd01124    1 VKTGIPGLDELLG-GGIPKGSVTLLTGGPGTGKTLFGLQFLYAGAKNGEPGLFFTFEESPERLLrnAKSFGWDFDemede 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  78 -DLLISQPDTGEQALEICDML-------VRSNAVDVIIVDSVAALTPKAEiegemgdshvglQARLMSQALRKLTANIKN 149
Cdd:cd01124   80 gKLIIVDAPPTEAGRFSLDELlsrilsiIKSFKAKRVVIDSLSGLRRAKE------------DQMRARRIVIALLNELRA 147

                        170       180
                 ....*....|....*....|....*.
gi 944374708 150 ANCLCIFINQ---IRMKIGVMFGSPE 172
Cdd:cd01124  148 AGVTTIFTSEmrsFLSSESAGGGDVS 173
PLN03186 PLN03186
DNA repair protein RAD51 homolog; Provisional
 1-192 1.21e-08

DNA repair protein RAD51 homolog; Provisional


Pssm-ID: 178728 [Multi-domain]  Cd Length: 342  Bit Score: 53.58  E-value: 1.21e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   1 DIEAISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTL--TLQV-----IAEAQKKGKtCAFVDAEHALDP----IYA 69
Cdd:PLN03186 101 EIIQITTGSRELDKILE-GGIETGSITEIYGEFRTGKTQLchTLCVtcqlpLDQGGGEGK-AMYIDTEGTFRPqrliQIA 178

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  70 AKLGVNVDDLL-----ISQPDTGEQA---LEICDMLVRSNaVDVIIVDSVAALTpKAEIEGEmGDshvgLQAR--LMSQA 139
Cdd:PLN03186 179 ERFGLNGADVLenvayARAYNTDHQSellLEAASMMAETR-FALMIVDSATALY-RTEFSGR-GE----LSARqmHLGKF 251

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 944374708 140 LRKLTANIKNANCLCIFINQIRMKI--GVMFGSPETT-TGGNALKFYASVRLDIRR 192
Cdd:PLN03186 252 LRSLQRLADEFGVAVVITNQVVAQVdgSAFFAGPQLKpIGGNIMAHASTTRLALRK 307
XRCC3 cd19491
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ...
 12-160 1.88e-07

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: 49.60  E-value: 1.88e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  12 LDVALGiGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQ------KKGKTCAFVDAEHAL----------------DPIYA 69
Cdd:cd19491    1 LDELLG-GGIPVGGITEIAGESGAGKTQLCLQLALTVQlprelgGLGGGAVYICTESSFpskrlqqlasslpkryHLEKA 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  70 AKLGVNVddLLISQPDTgeQALEICDM-----LVRSNAVDVIIVDSVAALtpkAEIEGEMGDSHVGLQARLMSQALRKLT 144
Cdd:cd19491   80 KNFLDNI--FVEHVADL--ETLEHCLNyqlpaLLERGPIRLVVIDSIAAL---FRSEFDTSRSDLVERAKYLRRLADHLK 152

                        170
                 ....*....|....*.
gi 944374708 145 ANIKNANCLCIFINQI 160
Cdd:cd19491  153 RLADKYNLAVVVVNQV 168
PLN03187 PLN03187
meiotic recombination protein DMC1 homolog; Provisional
 1-192 3.26e-07

meiotic recombination protein DMC1 homolog; Provisional


Pssm-ID: 215620 [Multi-domain]  Cd Length: 344  Bit Score: 49.39  E-value: 3.26e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   1 DIEAISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTL--TLQVIAE-AQKKGKTC---AFVDAEHALDP----IYAA 70
Cdd:PLN03187 104 SVVRITTGSQALDELLG-GGIETRCITEAFGEFRSGKTQLahTLCVTTQlPTEMGGGNgkvAYIDTEGTFRPdrivPIAE 182

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  71 KLGVN----VDDLLISQPDTGEQ---ALEICDMLVRSNAVDVIIVDSVAALTPKAEI-EGEMGDShvglQARLmSQALRK 142
Cdd:PLN03187 183 RFGMDadavLDNIIYARAYTYEHqynLLLGLAAKMAEEPFRLLIVDSVIALFRVDFTgRGELAER----QQKL-AQMLSR 257

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 944374708 143 LTANIKNANCLCIFINQIRMKIG--VMFGSPETTTGGNALKFYASVRLDIRR 192
Cdd:PLN03187 258 LTKIAEEFNVAVYMTNQVIADPGggMFISDPKKPAGGHVLAHAATIRLMLRK 309
RadA_SMS_N cd01121
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ...
 1-111 6.46e-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: 48.30  E-value: 6.46e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   1 DIEAISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPI--YAAKLGVNVDD 78
Cdd:cd01121   60 EEERISTGIGELDRVLG-GGLVPGSVVLIGGDPGIGKSTLLLQVAARLAQRGGKVLYVSGEESLSQIklRAERLGLGSDN 138

                         90       100       110
                 ....*....|....*....|....*....|....
gi 944374708  79 LLIsqpdTGEQALE-ICDMLVRSNAvDVIIVDSV 111
Cdd:cd01121  139 LYL----LAETNLEaILAEIEELKP-SLVVIDSI 167
Rad51 cd19513
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ...
 5-192 6.81e-07

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: 48.08  E-value: 6.81e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   5 ISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTL--TLQV-----IAEAQKKGKtCAFVDAEHALDP----IYAAKLG 73
Cdd:cd19513    1 ITTGSKELDKLLG-GGIETGSITELFGEFRTGKTQLchTLAVtcqlpIDQGGGEGK-ALYIDTEGTFRPerllAIAERYG 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  74 VNVDDLL-----ISQPDTGEQA---LEICDMLVRSNaVDVIIVDSVAALTpKAEIEGEmGDshvgLQARLM--SQALRKL 143
Cdd:cd19513   79 LNGEDVLdnvayARAYNTDHQMqllIQASAMMAESR-YALLIVDSATALY-RTDYSGR-GE----LSARQMhlAKFLRML 151

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|...
gi 944374708 144 TaNIKNANCLCIFI-NQIRMKI--GVMF-GSPETTTGGNALKFYASVRLDIRR 192
Cdd:cd19513  152 Q-RLADEFGVAVVItNQVVAQVdgAAMFaGDPKKPIGGNIMAHASTTRLYLRK 203
KaiC-like_N cd19488
N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ...
 5-97 1.35e-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: 46.96  E-value: 1.35e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   5 ISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPI--YAAKLGVNVDDLLI- 81
Cdd:cd19488    1 ISTGIPGLDDILR-GGLPPRRLYLVEGAPGTGKTTLALQFLLEGAANGETGLYITLSETEQELraVALSHGWSLDGIHIf 79

                         90
                 ....*....|....*...
gi 944374708  82 --SQPDTGEQALEICDML 97
Cdd:cd19488   80 elSPSESALDAAQQYTIL 97
recomb_DMC1 TIGR02238
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ...
 5-192 2.39e-06

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: 46.69  E-value: 2.39e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708    5 ISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTL--TLQVIAEAQKKGK----TCAFVDAEHALDP----IYAAKLGV 74
Cdd:TIGR02238  78 ITTGSQALDGILG-GGIESMSITEVFGEFRCGKTQLshTLCVTAQLPREMGggngKVAYIDTEGTFRPdrirAIAERFGV 156

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   75 N----VDDLLISQPDTGEQALEICDMLVRSNAVD---VIIVDSVAAL-TPKAEIEGEMGDShvglQARLmSQALRKLTAN 146
Cdd:TIGR02238 157 DpdavLDNILYARAYTSEHQMELLDYLAAKFSEEpfrLLIVDSIMALfRVDFSGRGELSER----QQKL-AQMLSRLNKI 231

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 944374708  147 IKNANCLCIFINQIRMKIG--VMFGS-PETTTGGNALKFYASVRLDIRR 192
Cdd:TIGR02238 232 SEEFNVAVFVTNQVQADPGatMTFIAdPKKPIGGHVLAHASTTRILLRK 280
FlaH COG2874
Archaellum biogenesis ATPase ArlH/FlaH [Cell motility];
5-115 2.68e-06

Archaellum biogenesis ATPase ArlH/FlaH [Cell motility];


Pssm-ID: 442121  Cd Length: 230  Bit Score: 46.36  E-value: 2.68e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   5 ISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHA----LDPIYAakLGVNVDDLL 80
Cdd:COG2874    3 ISTGNDELDKRLG-GGIPLGSLVLIEGENGTGKSVLSQQFAYGALENGLSVTYISTELTtkefIKQMKS--LSYDISDYL 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 944374708  81 IS--------QPDTGE----QALEICDMLVRSNA-----VDVIIVDSVAALT 115
Cdd:COG2874   80 LRgrllflpvHPLGFEwnskQRKDLLKRLMKYIAsnlweADVIIIDSLSALL 131
recomb_RAD51 TIGR02239
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ...
 1-192 8.91e-06

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: 8.91e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708    1 DIEAISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTL--TLQV-----IAEAQKKGKtCAFVDAEHALDPI----YA 69
Cdd:TIGR02239  74 EVIQLTTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLchTLAVtcqlpIDQGGGEGK-ALYIDTEGTFRPErllaIA 151

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   70 AKLGVNVDDLLIS-------QPDTGEQALEICDMLVRSNAVDVIIVDSVAALTpKAEIEGEmGDshvgLQARLMSQA--L 140
Cdd:TIGR02239 152 ERYGLNPEDVLDNvayarayNTDHQLQLLQQAAAMMSESRFALLIVDSATALY-RTDFSGR-GE----LSARQMHLArfL 225

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 944374708  141 RKLTANIKNANCLCIFINQIRMKI---GVMF-GSPETTTGGNALKFYASVRLDIRR 192
Cdd:TIGR02239 226 RSLQRLADEFGVAVVITNQVVAQVdgaGSMFaGDPKKPIGGNIMAHASTTRLSLRK 281
PTZ00035 PTZ00035
Rad51 protein; Provisional
 5-192 1.24e-05

Rad51 protein; Provisional


Pssm-ID: 185407 [Multi-domain]  Cd Length: 337  Bit Score: 44.60  E-value: 1.24e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   5 ISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTL--TLQVIAE-----AQKKGKtCAFVDAEHALDP-----IyAAKL 72
Cdd:PTZ00035 100 ITTGSTQLDKLLG-GGIETGSITELFGEFRTGKTQLchTLCVTCQlpieqGGGEGK-VLYIDTEGTFRPerivqI-AERF 176

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  73 GVN----VDDLLISQPDTGEQALE----ICDMLVRSNAVdVIIVDSVAALTpkaEIE----GEMGDSHVGLqARLMSqAL 140
Cdd:PTZ00035 177 GLDpedvLDNIAYARAYNHEHQMQllsqAAAKMAEERFA-LLIVDSATALF---RVDysgrGELAERQQHL-GKFLR-AL 250

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 944374708 141 RKLtANIKNancLCIFI-NQIRMKIG---VMFGSPETTTGGNALKFYASVRLDIRR 192
Cdd:PTZ00035 251 QKL-ADEFN---VAVVItNQVMADVDgasMFVADPKKPIGGHIIAHASTTRLSLRK 302
PRK06067 PRK06067
flagellar accessory protein FlaH; Validated
 1-121 3.15e-05

flagellar accessory protein FlaH; Validated


Pssm-ID: 180381  Cd Length: 234  Bit Score: 43.04  E-value: 3.15e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   1 DIEAISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPiYAAK---LGVNVD 77
Cdd:PRK06067   3 KKEIISTGNEELDRKLG-GGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENTSKS-YLKQmesVKIDIS 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 944374708  78 DLLIS---------------QPDTGEQALEICDMLVRSNAVDVIIVDSVAALTPKAEIE 121
Cdd:PRK06067  81 DFFLWgylrifplntegfewNSTLANKLLELIIEFIKSKREDVIIIDSLTIFATYAEED 139
Rad51D cd19489
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 19-48 9.55e-05

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: 41.47  E-value: 9.55e-05
                         10        20        30
                 ....*....|....*....|....*....|
gi 944374708  19 GGLPCGRIVEIYGPESSGKTTLTLQVIAEA 48
Cdd:cd19489    2 GGLRTGEITELVGESSSGKTQLCLTAAANV 31
XRCC2 cd19490
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ...
 24-191 1.97e-04

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: 40.79  E-value: 1.97e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  24 GRIVEIYGPESSGKTTLTLQVIA---------EAQKKGKTCA--FVDAEHALDP-----IYAAKLGVNVDDLLISQPDTG 87
Cdd:cd19490    1 GDVIEITGPSGSGKTELLYHLAArcilpsswgGVPLGGLEAAvvFIDTDGRFDIlrlrsILEARIRAAIQAANSSDDEED 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  88 -EQALEIC-----------------------DMLVRSNA---VDVIIVDSVAALTPKAEIEGEMGDSHVGLQARLMSQAL 140
Cdd:cd19490   81 vEEIAREClqrlhifrchsslqllatllsleNYLLSLSAnpeLGLLLIDSISAFYWQDRFSAELARAAPLLQEAALRAIL 160

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 944374708 141 RKLTANIKNANCLCIFINQIRMKIgvmfGSPETTTGGNALKFYASVRLDIR 191
Cdd:cd19490  161 RELRRLRRRFQLVVIATKQALFPG----KSASTDNPAANNAVSKASAPSHR 207
ATPase_2 pfam01637
ATPase domain predominantly from Archaea; This family contain a conserved P-loop motif that is ...
 26-60 4.38e-04

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: 39.61  E-value: 4.38e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 944374708   26 IVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDA 60
Cdd:pfam01637  22 IYVIYGPEGCGKTALLRESIENLLDLGYYVIYYDP 56
RepA COG3598
RecA-family ATPase [Replication, recombination and repair];
21-192 1.96e-03

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


Pssm-ID: 442817 [Multi-domain]  Cd Length: 313  Bit Score: 37.96  E-value: 1.96e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  21 LPCGRIVEIYGPESSGKTTLTLQV---IAEAQK------KGKTCAFVDAEHALDPI------YAAKLGVNVDDL-----L 80
Cdd:COG3598   10 LPEGGVTLLAGPPGTGKSFLALQLaaaVAAGGPwlgrrvPPGKVLYLAAEDDRGELrrrlkaLGADLGLPFADLdgrlrL 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708  81 IS-----QPDTGEQALEicdMLVRSNAVDVIIVDSVAALTPkaeiegemGDSHVGLQARLMSQALRKLtanIKNANCLCI 155
Cdd:COG3598   90 LSlagdlDDTDDLEALE---RAIEEEGPDLVVIDPLARVFG--------GDENDAEEMRAFLNPLDRL---AERTGAAVL 155

                        170       180       190
                 ....*....|....*....|....*....|....*..
gi 944374708 156 FINQIRmKIGVMFGSPETTTGGNALKFYASVRLDIRR 192
Cdd:COG3598  156 LVHHTG-KGGAGKDSGDRARGSSALRGAARSVLVLSR 191
KaiC-like_C cd19487
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ...
 5-56 2.18e-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: 37.66  E-value: 2.18e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 944374708   5 ISTGSLSLDVALGiGGLPCGRIVEIYGPESSGKTTLTLQVIAEAQKKGKTCA 56
Cdd:cd19487    1 VSSGVPELDELLG-GGLERGTSTLLIGPAGVGKSTLALQFAKAAAARGERSV 51
AAA_24 pfam13479
AAA domain; This AAA domain is found in a wide variety of presumed phage proteins.
 25-111 2.97e-03

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


Pssm-ID: 433243  Cd Length: 199  Bit Score: 37.31  E-value: 2.97e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   25 RIVeIYGPESSGKTTLtlqvIAEAQKKgktcAFVDAEHALDPIYAAKLGVnvddllISQPDTGEQALEICDMLVRSNAV- 103
Cdd:pfam13479   4 KIL-IYGPSGIGKTTF----AKTLPKP----LFLDTEKGSKALDGDRFPD------IVIRDSWQDFLDAIDELTAAELAd 68


                  ....*....
gi 944374708  104 -DVIIVDSV 111
Cdd:pfam13479  69 yKTIVIDTV 77
PRK10851 PRK10851
sulfate/thiosulfate ABC transporter ATP-binding protein CysA;
13-55 3.66e-03

sulfate/thiosulfate ABC transporter ATP-binding protein CysA;


Pssm-ID: 182778 [Multi-domain]  Cd Length: 353  Bit Score: 37.37  E-value: 3.66e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 944374708  13 DVALGIgglPCGRIVEIYGPESSGKTTLtLQVIA--EAQKKGKTC 55
Cdd:PRK10851  20 DISLDI---PSGQMVALLGPSGSGKTTL-LRIIAglEHQTSGHIR 60
Grc3 COG1341
Polynucleotide 5'-kinase, involved in rRNA processing [Translation, ribosomal structure and ...
 18-60 4.24e-03

Polynucleotide 5'-kinase, involved in rRNA processing [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440952  Cd Length: 353  Bit Score: 37.31  E-value: 4.24e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 944374708  18 IGGLPCGRIVeIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDA 60
Cdd:COG1341   30 ILSSGPGRIM-VLGPVDSGKSTLTTLLANKLLAEGLKVAIIDA 71
NadR3 COG3172
Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase ...
 25-43 5.58e-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: 36.34  E-value: 5.58e-03
                         10
                 ....*....|....*....
gi 944374708  25 RIVeIYGPESSGKTTLTLQ 43
Cdd:COG3172   10 KIV-LLGAESTGKTTLARA 27
AAA_22 pfam13401
AAA domain;
25-118 5.61e-03

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 35.40  E-value: 5.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 944374708   25 RIVEIYGPESSGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPI-YAAKLGVNVDDLLISQPDTGEQALEICDMLVRSNAV 103
Cdd:pfam13401   6 GILVLTGESGTGKTTLLRRLLEQLPEVRDSVVFVDLPSGTSPKdLLRALLRALGLPLSGRLSKEELLAALQQLLLALAVA 85

                          90
                  ....*....|....*
gi 944374708  104 DVIIVDSVAALTPKA 118
Cdd:pfam13401  86 VVLIIDEAQHLSLEA 100
 
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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