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Conserved domains on  [gi|2509134732|gb|KAJ9432086|]
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recombinase RecA [Pantoea sp. YR343]

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

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
recA PRK09354
recombinase A; Provisional
1-349 0e+00

recombinase A; Provisional


:

Pssm-ID: 236476 [Multi-domain]  Cd Length: 349  Bit Score: 694.23  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732   1 MAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQV 80
Cdd:PRK09354    1 MAMDEEKQKALEAALKQIEKQFGKGSIMRLGDDAAMDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHA 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  81 IASAQRKGKTCAFIDAEHALDPVYAKKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIIVDSVAALTPKAEIEGEI 160
Cdd:PRK09354   81 IAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEM 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 161 GDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAIKEGDEVVG 240
Cdd:PRK09354  161 GDSHVGLQARLMSQALRKLTGNISKSNTTVIFINQIREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDGDEVIG 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 241 SETRVKVVKNKIAAPFKQAEFQIMYGEGINTFGELVDLGVKHKLVEKAGAWYSYNGEKIGQGKANSTNFLKENPAIANEI 320
Cdd:PRK09354  241 NRTKVKVVKNKVAPPFKQAEFDIMYGEGISREGELIDLGVELGIIEKSGAWYSYNGEKIGQGRENAKQYLKENPELADEI 320
                         330       340
                  ....*....|....*....|....*....
gi 2509134732 321 DKKLRDLLLSGEVAAADTAKISADDREEA 349
Cdd:PRK09354  321 EKKIREKLGLSAAAAEEEEEEDEEEEEEE 349
 
Name Accession Description Interval E-value
recA PRK09354
recombinase A; Provisional
1-349 0e+00

recombinase A; Provisional


Pssm-ID: 236476 [Multi-domain]  Cd Length: 349  Bit Score: 694.23  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732   1 MAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQV 80
Cdd:PRK09354    1 MAMDEEKQKALEAALKQIEKQFGKGSIMRLGDDAAMDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHA 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  81 IASAQRKGKTCAFIDAEHALDPVYAKKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIIVDSVAALTPKAEIEGEI 160
Cdd:PRK09354   81 IAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEM 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 161 GDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAIKEGDEVVG 240
Cdd:PRK09354  161 GDSHVGLQARLMSQALRKLTGNISKSNTTVIFINQIREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDGDEVIG 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 241 SETRVKVVKNKIAAPFKQAEFQIMYGEGINTFGELVDLGVKHKLVEKAGAWYSYNGEKIGQGKANSTNFLKENPAIANEI 320
Cdd:PRK09354  241 NRTKVKVVKNKVAPPFKQAEFDIMYGEGISREGELIDLGVELGIIEKSGAWYSYNGEKIGQGRENAKQYLKENPELADEI 320
                         330       340
                  ....*....|....*....|....*....
gi 2509134732 321 DKKLRDLLLSGEVAAADTAKISADDREEA 349
Cdd:PRK09354  321 EKKIREKLGLSAAAAEEEEEEDEEEEEEE 349
RecA COG0468
RecA/RadA recombinase [Replication, recombination and repair];
1-348 0e+00

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


Pssm-ID: 440236 [Multi-domain]  Cd Length: 351  Bit Score: 665.72  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732   1 MAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQV 80
Cdd:COG0468     4 KVASSEKEKALEAALSQIEKQFGKGSIMRLGDKARQDVEVISTGSLALDIALGVGGLPRGRIVEIYGPESSGKTTLALHA 83
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  81 IASAQRKGKTCAFIDAEHALDPVYAKKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIIVDSVAALTPKAEIEGEI 160
Cdd:COG0468    84 IAEAQKAGGIAAFIDAEHALDPEYAKKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDLIVVDSVAALVPKAEIEGEM 163
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 161 GDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAIKEGDEVVG 240
Cdd:COG0468   164 GDSHVGLQARLMSQALRKLTGAISKSNTTVIFINQLREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDGDEVIG 243
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 241 SETRVKVVKNKIAAPFKQAEFQIMYGEGINTFGELVDLGVKHKLVEKAGAWYSYNGEKIGQGKANSTNFLKENPAIANEI 320
Cdd:COG0468   244 NRTRVKVVKNKVAPPFKEAEFDIMYGEGISKEGELLDLAVELGIIEKSGAWYSYGGERLGQGRENAKQFLKENPELAEEI 323
                         330       340
                  ....*....|....*....|....*...
gi 2509134732 321 DKKLRDLLLSGEVAAADTAKISADDREE 348
Cdd:COG0468   324 EAKIREKLGLGAVSEAAAAEEEEDEEEE 351
tigrfam_recA TIGR02012
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization ...
6-326 0e+00

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: 607.83  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732   6 NKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIASAQ 85
Cdd:TIGR02012   1 DKQKALEAALAQIEKQFGKGSIMRLGEKTVMDVETISTGSLALDLALGVGGLPKGRIIEIYGPESSGKTTLALHAIAEAQ 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  86 RKGKTCAFIDAEHALDPVYAKKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIIVDSVAALTPKAEIEGEIGDSHM 165
Cdd:TIGR02012  81 KAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDIIVVDSVAALVPKAEIEGEMGDSHV 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 166 GLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAIKEGDEVVGSETRV 245
Cdd:TIGR02012 161 GLQARLMSQALRKLTGALSKSNTTAIFINQIREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTVKQGEEVVGNRTKV 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 246 KVVKNKIAAPFKQAEFQIMYGEGINTFGELVDLGVKHKLVEKAGAWYSYNGEKIGQGKANSTNFLKENPAIANEIDKKLR 325
Cdd:TIGR02012 241 KVVKNKVAPPFREAEFDILYGEGISKLGEIIDLAVELDIIKKSGSWYSYGDEKLGQGRENAKAFLKENPELAQEIEKKVR 320

                  .
gi 2509134732 326 D 326
Cdd:TIGR02012 321 E 321
RecA pfam00154
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ...
9-270 0e+00

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: 515.03  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732   9 KALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKG 88
Cdd:pfam00154   1 KALEAALKQIEKQFGKGSIMKLGDEKKLDVETISTGSLALDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKAG 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  89 KTCAFIDAEHALDPVYAKKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIIVDSVAALTPKAEIEGEIGDSHMGLA 168
Cdd:pfam00154  81 GTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADMLVRSGAIDLIVVDSVAALVPKAEIEGEMGDSHVGLQ 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 169 ARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAIKEGDEVVGSETRVKVV 248
Cdd:pfam00154 161 ARLMSQALRKLTGSISKSNTTVIFINQIREKIGVMFGNPETTTGGRALKFYASVRLDIRRIGQIKQGEEVIGNKTKVKVV 240
                         250       260
                  ....*....|....*....|..
gi 2509134732 249 KNKIAAPFKQAEFQIMYGEGIN 270
Cdd:pfam00154 241 KNKVAPPFKEAEFDIMYGEGIS 262
RecA cd00983
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
37-270 2.85e-167

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: 465.88  E-value: 2.85e-167
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  37 DVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEHALDPVYAKKLGVDIDNLL 116
Cdd:cd00983     1 DVEVIPTGSLSLDIALGIGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKLGGTAAFIDAEHALDPEYAKKLGVDIDNLL 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 117 CSQPDTGEQALEICDALARSGAVDVIIVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQI 196
Cdd:cd00983    81 VSQPDTGEQALEIADTLIRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSLSKSKTTVIFINQL 160
                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2509134732 197 RMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAIKEGDEVVGSETRVKVVKNKIAAPFKQAEFQIMYGEGIN 270
Cdd:cd00983   161 REKIGVMFGNPETTTGGNALKFYASVRLDIRRIELIKEGEDVIGNRTKVKVVKNKVAPPFKQAEFDILYGEGIS 234
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
60-229 4.36e-11

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: 60.46  E-value: 4.36e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732   60 GRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEHALDPVYAKKLGVDIDNLLCSqpDTGEQALEICDALARSGAV 139
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS--GSGELRLRLALALARKLKP 79
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  140 DVIIVDSVAALTPKAEiegeigdshmgLAARMMSQAMRKLAGNLKQSNTLLIFINqirmkigvmfgNPETTTGGNALKFY 219
Cdd:smart00382  80 DVLILDEITSLLDAEQ-----------EALLLLLEELRLLLLLKSEKNLTVILTT-----------NDEKDLGPALLRRR 137
                          170
                   ....*....|
gi 2509134732  220 ASVRLDIRRI 229
Cdd:smart00382 138 FDRRIVLLLI 147
 
Name Accession Description Interval E-value
recA PRK09354
recombinase A; Provisional
1-349 0e+00

recombinase A; Provisional


Pssm-ID: 236476 [Multi-domain]  Cd Length: 349  Bit Score: 694.23  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732   1 MAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQV 80
Cdd:PRK09354    1 MAMDEEKQKALEAALKQIEKQFGKGSIMRLGDDAAMDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHA 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  81 IASAQRKGKTCAFIDAEHALDPVYAKKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIIVDSVAALTPKAEIEGEI 160
Cdd:PRK09354   81 IAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEM 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 161 GDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAIKEGDEVVG 240
Cdd:PRK09354  161 GDSHVGLQARLMSQALRKLTGNISKSNTTVIFINQIREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDGDEVIG 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 241 SETRVKVVKNKIAAPFKQAEFQIMYGEGINTFGELVDLGVKHKLVEKAGAWYSYNGEKIGQGKANSTNFLKENPAIANEI 320
Cdd:PRK09354  241 NRTKVKVVKNKVAPPFKQAEFDIMYGEGISREGELIDLGVELGIIEKSGAWYSYNGEKIGQGRENAKQYLKENPELADEI 320
                         330       340
                  ....*....|....*....|....*....
gi 2509134732 321 DKKLRDLLLSGEVAAADTAKISADDREEA 349
Cdd:PRK09354  321 EKKIREKLGLSAAAAEEEEEEDEEEEEEE 349
RecA COG0468
RecA/RadA recombinase [Replication, recombination and repair];
1-348 0e+00

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


Pssm-ID: 440236 [Multi-domain]  Cd Length: 351  Bit Score: 665.72  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732   1 MAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQV 80
Cdd:COG0468     4 KVASSEKEKALEAALSQIEKQFGKGSIMRLGDKARQDVEVISTGSLALDIALGVGGLPRGRIVEIYGPESSGKTTLALHA 83
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  81 IASAQRKGKTCAFIDAEHALDPVYAKKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIIVDSVAALTPKAEIEGEI 160
Cdd:COG0468    84 IAEAQKAGGIAAFIDAEHALDPEYAKKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDLIVVDSVAALVPKAEIEGEM 163
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 161 GDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAIKEGDEVVG 240
Cdd:COG0468   164 GDSHVGLQARLMSQALRKLTGAISKSNTTVIFINQLREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDGDEVIG 243
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 241 SETRVKVVKNKIAAPFKQAEFQIMYGEGINTFGELVDLGVKHKLVEKAGAWYSYNGEKIGQGKANSTNFLKENPAIANEI 320
Cdd:COG0468   244 NRTRVKVVKNKVAPPFKEAEFDIMYGEGISKEGELLDLAVELGIIEKSGAWYSYGGERLGQGRENAKQFLKENPELAEEI 323
                         330       340
                  ....*....|....*....|....*...
gi 2509134732 321 DKKLRDLLLSGEVAAADTAKISADDREE 348
Cdd:COG0468   324 EAKIREKLGLGAVSEAAAAEEEEDEEEE 351
tigrfam_recA TIGR02012
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization ...
6-326 0e+00

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: 607.83  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732   6 NKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIASAQ 85
Cdd:TIGR02012   1 DKQKALEAALAQIEKQFGKGSIMRLGEKTVMDVETISTGSLALDLALGVGGLPKGRIIEIYGPESSGKTTLALHAIAEAQ 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  86 RKGKTCAFIDAEHALDPVYAKKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIIVDSVAALTPKAEIEGEIGDSHM 165
Cdd:TIGR02012  81 KAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDIIVVDSVAALVPKAEIEGEMGDSHV 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 166 GLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAIKEGDEVVGSETRV 245
Cdd:TIGR02012 161 GLQARLMSQALRKLTGALSKSNTTAIFINQIREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTVKQGEEVVGNRTKV 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 246 KVVKNKIAAPFKQAEFQIMYGEGINTFGELVDLGVKHKLVEKAGAWYSYNGEKIGQGKANSTNFLKENPAIANEIDKKLR 325
Cdd:TIGR02012 241 KVVKNKVAPPFREAEFDILYGEGISKLGEIIDLAVELDIIKKSGSWYSYGDEKLGQGRENAKAFLKENPELAQEIEKKVR 320

                  .
gi 2509134732 326 D 326
Cdd:TIGR02012 321 E 321
RecA pfam00154
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ...
9-270 0e+00

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: 515.03  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732   9 KALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKG 88
Cdd:pfam00154   1 KALEAALKQIEKQFGKGSIMKLGDEKKLDVETISTGSLALDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKAG 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  89 KTCAFIDAEHALDPVYAKKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIIVDSVAALTPKAEIEGEIGDSHMGLA 168
Cdd:pfam00154  81 GTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADMLVRSGAIDLIVVDSVAALVPKAEIEGEMGDSHVGLQ 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 169 ARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAIKEGDEVVGSETRVKVV 248
Cdd:pfam00154 161 ARLMSQALRKLTGSISKSNTTVIFINQIREKIGVMFGNPETTTGGRALKFYASVRLDIRRIGQIKQGEEVIGNKTKVKVV 240
                         250       260
                  ....*....|....*....|..
gi 2509134732 249 KNKIAAPFKQAEFQIMYGEGIN 270
Cdd:pfam00154 241 KNKVAPPFKEAEFDIMYGEGIS 262
RecA cd00983
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
37-270 2.85e-167

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: 465.88  E-value: 2.85e-167
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  37 DVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEHALDPVYAKKLGVDIDNLL 116
Cdd:cd00983     1 DVEVIPTGSLSLDIALGIGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKLGGTAAFIDAEHALDPEYAKKLGVDIDNLL 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 117 CSQPDTGEQALEICDALARSGAVDVIIVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQI 196
Cdd:cd00983    81 VSQPDTGEQALEIADTLIRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSLSKSKTTVIFINQL 160
                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2509134732 197 RMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAIKEGDEVVGSETRVKVVKNKIAAPFKQAEFQIMYGEGIN 270
Cdd:cd00983   161 REKIGVMFGNPETTTGGNALKFYASVRLDIRRIELIKEGEDVIGNRTKVKVVKNKVAPPFKQAEFDILYGEGIS 234
recA PRK09519
intein-containing recombinase RecA;
1-254 5.68e-116

intein-containing recombinase RecA;


Pssm-ID: 77219 [Multi-domain]  Cd Length: 790  Bit Score: 354.40  E-value: 5.68e-116
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732   1 MAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQV 80
Cdd:PRK09519    1 MTQTPDREKALELAVAQIEKSYGKGSVMRLGDEARQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHA 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  81 IASAQRKGKTCAFIDAEHALDPVYAKKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIIVDSVAALTPKAEIEGEI 160
Cdd:PRK09519   81 VANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGALDIVVIDSVAALVPRAELEGEM 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 161 GDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAIKEGDEVVG 240
Cdd:PRK09519  161 GDSHVGLQARLMSQALRKMTGALNNSGTTAIFINQLRDKIGVMFGSPETTTGGKALKFYASVRMDVRRVETLKDGTNAVG 240
                         250
                  ....*....|....
gi 2509134732 241 SETRVKVVKNKIAA 254
Cdd:PRK09519  241 NRTRVKVVKNKCLA 254
RecA-like cd01393
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
60-228 2.98e-61

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: 194.49  E-value: 2.98e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  60 GRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEHALDPVYA-----------KKLGVDIDNLLCSQPDTGEQALE 128
Cdd:cd01393     1 GKITEIYGPPGSGKTQLALQLAANALLLGGGVVWIDTEGAFPPSRLvqileaspsseLELAEALSRLLYFRPPDTLAHLL 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 129 ICDALARSGA----VDVIIVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMF 204
Cdd:cd01393    81 ALDSLPESLFpppnTSLVVVDSVSALFRKAFPRGGDGDSSSSLRARLLSQLARALQKLAAQFNLAVVVTNQVTTKIRGGS 160
                         170       180
                  ....*....|....*....|....*
gi 2509134732 205 G-NPETTTGGNALKFYASVRLDIRR 228
Cdd:cd01393   161 GaSLVPPALGNTWEHSVSTRLLLYR 185
recA PRK09519
intein-containing recombinase RecA;
247-339 3.86e-24

intein-containing recombinase RecA;


Pssm-ID: 77219 [Multi-domain]  Cd Length: 790  Bit Score: 103.63  E-value: 3.86e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 247 VVKNKIAAPFKQAEFQIMYGEGINTFGELVDLGVKHKLVEKAGAWYSYNGEKIGQGKANSTNFLKENPAIANEIDKKLRD 326
Cdd:PRK09519  687 VVVHNCSPPFKQAEFDILYGKGISREGSLIDMGVDQGLIRKSGAWFTYEGEQLGQGKENARNFLVENADVADEIEKKIKE 766
                          90
                  ....*....|...
gi 2509134732 327 LLLSGEVAAADTA 339
Cdd:PRK09519  767 KLGIGAVVTDDPS 779
archRadB cd01394
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ...
41-263 1.08e-19

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: 86.21  E-value: 1.08e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  41 ISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEhALDP-----VYAKKLGVDIDNL 115
Cdd:cd01394     1 LSTGSKSLDSLLG-GGVERGTITQIYGPPGSGKTNICLQLAVEAAKQGKKVVYIDTE-GLSPerfqqIAGERFESIASNI 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 116 LCSQP-DTGEQALEICDA--LARSGAVDVIIVDSVAALTpKAEIEGEIGdshmglAARMMSQAMRKLAGNLKQSNTLLIF 192
Cdd:cd01394    79 IVFEPySFDEQGVAIQEAekLLKSDKVDLVVVDSATALY-RLELGDDSE------ANRELSRQMSKLLSIARKYDIPVVI 151
                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2509134732 193 INQIRMKIGVMFGNPettTGGNALKfYASvrldirriGAIKEGDEVVGSETRVKVVKNKIAAPFKQAEFQI 263
Cdd:cd01394   152 TNQVYSDIDDDRLKP---VGGTLLE-HWS--------KAIIRLEKSPPGLRRATLEKHRSRPEGQSAGFRI 210
Rad51 pfam08423
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ...
41-269 2.10e-15

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: 75.03  E-value: 2.10e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  41 ISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQ-------RKGKtCAFIDAEHALDPV----YAKKLG 109
Cdd:pfam08423  19 ITTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLCHTLCVTCQlplemggGEGK-ALYIDTEGTFRPErlvaIAERYG 96
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 110 VD----IDNLLCSQPDTGEQALEICDALAR---SGAVDVIIVDSVAALTpKAEIE--GEIGDSHMGLAARMMSqaMRKLA 180
Cdd:pfam08423  97 LDpedvLDNVAYARAYNSEHQMQLLQQAAAmmsESRFALLIVDSATALY-RTDFSgrGELAERQQHLAKFLRT--LQRLA 173
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 181 gnlKQSNTLLIFINQIRMKIG---VMF-GNPETTTGGNALKFYASVRLDIRRigaiKEGdevvgsETRVKVVKNKIAAPF 256
Cdd:pfam08423 174 ---DEFGVAVVITNQVVAQVDgaaGMFsGDPKKPIGGHIMAHASTTRLSLRK----GRG------EQRICKIYDSPCLPE 240
                         250
                  ....*....|...
gi 2509134732 257 KQAEFQImYGEGI 269
Cdd:pfam08423 241 SEAVFAI-GSGGI 252
COG4544 COG4544
Uncharacterized conserved protein [Function unknown];
24-154 1.32e-14

Uncharacterized conserved protein [Function unknown];


Pssm-ID: 443609 [Multi-domain]  Cd Length: 230  Bit Score: 72.27  E-value: 1.32e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  24 KGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPE-SSGKTTLTLQVIASAQRKGKTCAFIDAEHALdp 102
Cdd:COG4544    12 RRRIWRGEGLAAAARAVLPTGFAALDAALPGGGLPRGALHEILGPApGIGELGLLLPLLARLAQAGGPVLWIAPPYDL-- 89
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2509134732 103 vYA---KKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIIVDsVAALTPKA 154
Cdd:COG4544    90 -YApglAAAGLDPERLLLVRARRPADALWAAEEALRSGACGAVVAW-LERLDLTA 142
RAD55 COG0467
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
41-208 1.29e-13

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


Pssm-ID: 440235 [Multi-domain]  Cd Length: 221  Bit Score: 69.17  E-value: 1.29e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  41 ISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEHALDPV--YAKKLGVDIDNLLCS 118
Cdd:COG0467     2 VPTGIPGLDELLG-GGLPRGSSTLLSGPPGTGKTTLALQFLAEGLRRGEKGLYVSFEESPEQLlrRAESLGLDLEEYIES 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 119 -------------QPDTGEQALEICDALARSGAvDVIIVDSVAALTPKAEIEGEIgdshmglaaRMMsqaMRKLAGNLKQ 185
Cdd:COG0467    81 gllriidlspeelGLDLEELLARLREAVEEFGA-KRVVIDSLSGLLLALPDPERL---------REF---LHRLLRYLKK 147
                         170       180
                  ....*....|....*....|...
gi 2509134732 186 SNTLLIFINQIRMKIGVMFGNPE 208
Cdd:COG0467   148 RGVTTLLTSETGGLEDEATEGGL 170
Rad51_DMC1_archRadA cd01123
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ...
41-228 1.46e-13

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: 69.48  E-value: 1.46e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  41 ISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTL--TLQV-----IASAQRKGKtCAFIDAEHALDPV----YAKKLG 109
Cdd:cd01123     1 ITTGSKELDKLLG-GGIETGSITEMFGEFRTGKTQLchTLAVtcqlpIDRGGGEGK-AIYIDTEGTFRPErlraIAQRFG 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 110 VD----IDNLLCSQPDTGEQALEICDALA---RSGAVDVIIVDSVAALTPKAEI-EGEIGDSHMGLaARMMSqAMRKLAg 181
Cdd:cd01123    79 LDpddvLDNVAYARAFNSDHQTQLLDQAAammVESRFKLLIVDSATALYRTDYSgRGELSARQMHL-AKFLR-MLQRLA- 155
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 2509134732 182 nlKQSNTLLIFINQIRMKIG---VMFGNPETTTGGNALKFYASVRLDIRR 228
Cdd:cd01123   156 --DEFGVAVVVTNQVVAQVDgamMFAADPKKPIGGNILAHASTTRLYLRK 203
DMC1 cd19514
homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in ...
41-270 3.38e-13

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: 68.15  E-value: 3.38e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  41 ISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTL--TLQVIASAQRK-----GKTCaFIDAEHALDP----VYAKKLG 109
Cdd:cd19514     1 ISTGSTELDKLLG-GGIESMSITEVFGEFRTGKTQLshTLCVTAQLPGSmggggGKVA-YIDTEGTFRPdrirPIAERFG 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 110 VD----IDNLLCSQPDTGEQALEICDALARSGAVD----VIIVDSVAAL-----TPKaeieGEIGDSHMGLaARMMSQaM 176
Cdd:cd19514    79 VDhdavLDNILYARAYTSEHQMELLDYVAAKFHEEavfrLLIIDSIMALfrvdfSGR----GELAERQQKL-AQMLSR-L 152
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 177 RKLAgnlKQSNTLLIFINQIRMKIG--VMF-GNPETTTGGNALKFYASVRLDIRRIGAikegdevvgsETRVKVVKNKIA 253
Cdd:cd19514   153 QKIS---EEYNVAVFITNQVTADPGaaMTFqADPKKPIGGHILAHASTTRISLRKGRG----------EERIAKIYDSPD 219
                         250
                  ....*....|....*..
gi 2509134732 254 APFKQAEFQIMYGeGIN 270
Cdd:cd19514   220 LPENEATFAITAG-GIA 235
recomb_radB TIGR02237
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ...
48-201 1.70e-12

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: 65.90  E-value: 1.70e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  48 LDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEhALDPVYAKKLGVD-----IDNLLCSQP-D 121
Cdd:TIGR02237   1 IDELLG-GGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTE-GLSPERFKQIAEDrperaLSNFIVFEVfD 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 122 TGEQALEICDA--LARSGAVDVIIVDSVAALTpKAEIEGEIGDSHMGLAARMmsQAMRKLAgnlKQSNTLLIFINQIRMK 199
Cdd:TIGR02237  79 FDEQGVAIQKTskFIDRDSASLVVVDSFTALY-RLELSDDRISRNRELARQL--TLLLSLA---RKKNLAVVITNQVYTD 152

                  ..
gi 2509134732 200 IG 201
Cdd:TIGR02237 153 VN 154
radB PRK09361
DNA repair and recombination protein RadB; Provisional
39-263 7.29e-12

DNA repair and recombination protein RadB; Provisional


Pssm-ID: 236482 [Multi-domain]  Cd Length: 225  Bit Score: 64.11  E-value: 7.29e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  39 ETISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEhALDPVYAKKLGVD-----ID 113
Cdd:PRK09361    3 ERLPTGCKMLDELLG-GGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE-GLSPERFKQIAGEdfeelLS 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 114 NLLCSQP-DTGEQALEICDALARSGA-VDVIIVDSVAALTpKAEIEgEIGDShmGLAARMMSQAMRKLAGNLKQSNTLLI 191
Cdd:PRK09361   81 NIIIFEPsSFEEQSEAIRKAEKLAKEnVGLIVLDSATSLY-RLELE-DEEDN--SKLNRELGRQLTHLLKLARKHDLAVV 156
                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2509134732 192 FINQIRMKIGvmfGNPETTTGGNALKfYASvrldirriGAIKEGDEVVGSETRVKVVKNKIAAPFKQAEFQI 263
Cdd:PRK09361  157 ITNQVYSDID---SDGLRPLGGHTLE-HWS--------KTILRLEKFRNGKRRATLEKHRSRPEGESAEFRI 216
radA PRK04301
DNA repair and recombination protein RadA; Validated
32-228 1.88e-11

DNA repair and recombination protein RadA; Validated


Pssm-ID: 235273 [Multi-domain]  Cd Length: 317  Bit Score: 64.13  E-value: 1.88e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  32 EDRSMDVETISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQR------KGKTCAFIDAEHALDP--- 102
Cdd:PRK04301   75 LERRKNVGKITTGSKELDELLG-GGIETQSITEFYGEFGSGKTQICHQLAVNVQLpeekggLEGKAVYIDTEGTFRPeri 153
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 103 -VYAKKLGVDIDNLLCS-----------QPDTGEQALEICdalARSGAVDVIIVDSVAALTpKAEIEGEiGDshmgLAAR 170
Cdd:PRK04301  154 eQMAEALGLDPDEVLDNihvaraynsdhQMLLAEKAEELI---KEGENIKLVIVDSLTAHF-RAEYVGR-GN----LAER 224
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2509134732 171 M------MSQAMRklAGNLkqSNTLLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRR 228
Cdd:PRK04301  225 QqklnkhLHDLLR--LADL--YNAAVVVTNQVMARPDAFFGDPTQPIGGHILGHTATFRIYLRK 284
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
60-229 4.36e-11

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: 60.46  E-value: 4.36e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732   60 GRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEHALDPVYAKKLGVDIDNLLCSqpDTGEQALEICDALARSGAV 139
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS--GSGELRLRLALALARKLKP 79
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  140 DVIIVDSVAALTPKAEiegeigdshmgLAARMMSQAMRKLAGNLKQSNTLLIFINqirmkigvmfgNPETTTGGNALKFY 219
Cdd:smart00382  80 DVLILDEITSLLDAEQ-----------EALLLLLEELRLLLLLKSEKNLTVILTT-----------NDEKDLGPALLRRR 137
                          170
                   ....*....|
gi 2509134732  220 ASVRLDIRRI 229
Cdd:smart00382 138 FDRRIVLLLI 147
Rad51B cd19493
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ...
49-250 9.85e-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: 60.80  E-value: 9.85e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  49 DIALGaGGLPMGRIVEIYGPESSGKT----TLTLQVIASAQRKGKT--CAFIDAEHAL------------DPVYAKK--- 107
Cdd:cd19493     1 DTALA-GGLPLGAITEITGASGSGKTqfalTLASSAAMPARKGGLDggVLYIDTESKFsaerlaeiaearFPEAFSGfme 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 108 ----LGVDIDNLLCSQPDTGEQALEICDAL---ARSGAVDVIIVDSVAALTPKA--EIEGEIGDSHMGLaARMMSqAMRK 178
Cdd:cd19493    80 enerAEEMLKRVAVVRVTTLAQLLERLPNLeehILSSGVRLVVIDSIAALVRREfgGSDGEVTERHNAL-AREAS-SLKR 157
                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2509134732 179 LAgnlKQSNTLLIFINQIRMKIGVMFGNPETTTG--GNALKFYASVRLDIRRIgaikegdevVGSETRV-KVVKN 250
Cdd:cd19493   158 LA---EEFRIAVLVTNQATTHFGDAGDGSSGVTAalGDAWAHAVNTRLRLERC---------LLQLRRVlEIVKS 220
recomb_DMC1 TIGR02238
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ...
3-266 1.27e-10

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: 61.72  E-value: 1.27e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732   3 IDENKQKALAAALGQIEkQFGKGSIMRLGEDRSMdVETISTGSLSLDIALGAGGLPMGrIVEIYGPESSGKTTL--TLQV 80
Cdd:TIGR02238  42 LSEAKVDKIKEAASKII-NPGFITAFEISQKRKK-VLKITTGSQALDGILGGGIESMS-ITEVFGEFRCGKTQLshTLCV 118
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  81 IASAQRKGK----TCAFIDAEHALDP----VYAKKLGVD----IDNLLCSQPDTGEQALEICDALARSGAVD---VIIVD 145
Cdd:TIGR02238 119 TAQLPREMGggngKVAYIDTEGTFRPdrirAIAERFGVDpdavLDNILYARAYTSEHQMELLDYLAAKFSEEpfrLLIVD 198
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 146 SVAAL-TPKAEIEGEIGDSHMGLaARMMSQaMRKLAgnlKQSNTLLIFINQIRMKIG--VMF-GNPETTTGGNALKFYAS 221
Cdd:TIGR02238 199 SIMALfRVDFSGRGELSERQQKL-AQMLSR-LNKIS---EEFNVAVFVTNQVQADPGatMTFiADPKKPIGGHVLAHAST 273
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*
gi 2509134732 222 VRLDIRRigaiKEGDEvvgsetRVKVVKNKIAAPFKQAEFQIMYG 266
Cdd:TIGR02238 274 TRILLRK----GRGEE------RVAKLYDSPDMPEAEASFQITEG 308
PTZ00035 PTZ00035
Rad51 protein; Provisional
41-228 2.80e-10

Rad51 protein; Provisional


Pssm-ID: 185407 [Multi-domain]  Cd Length: 337  Bit Score: 60.78  E-value: 2.80e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  41 ISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTL--TLQVIAS-----AQRKGKtCAFIDAEHALDP----VYAKKLG 109
Cdd:PTZ00035  100 ITTGSTQLDKLLG-GGIETGSITELFGEFRTGKTQLchTLCVTCQlpieqGGGEGK-VLYIDTEGTFRPerivQIAERFG 177
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 110 VD----IDNLLCSQPDTGEQALEICDALARSGAVD---VIIVDSVAALTpkaEIE----GEIGDSHMGLaARMMSqAMRK 178
Cdd:PTZ00035  178 LDpedvLDNIAYARAYNHEHQMQLLSQAAAKMAEErfaLLIVDSATALF---RVDysgrGELAERQQHL-GKFLR-ALQK 252
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2509134732 179 LAgnlKQSNTLLIFINQIRMKIG---VMFGNPETTTGGNALKFYASVRLDIRR 228
Cdd:PTZ00035  253 LA---DEFNVAVVITNQVMADVDgasMFVADPKKPIGGHIIAHASTTRLSLRK 302
PLN03187 PLN03187
meiotic recombination protein DMC1 homolog; Provisional
34-272 5.64e-10

meiotic recombination protein DMC1 homolog; Provisional


Pssm-ID: 215620 [Multi-domain]  Cd Length: 344  Bit Score: 59.79  E-value: 5.64e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  34 RSMDVETISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQ---RKGKTC---AFIDAEHALDP----V 103
Cdd:PLN03187  101 KRKSVVRITTGSQALDELLG-GGIETRCITEAFGEFRSGKTQLAHTLCVTTQlptEMGGGNgkvAYIDTEGTFRPdrivP 179
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 104 YAKKLGVD----IDNLLCSQPDTGEQALEICDALARSGAVD---VIIVDSVAALTPKAEI-EGEIGDSHMGLaARMMSQa 175
Cdd:PLN03187  180 IAERFGMDadavLDNIIYARAYTYEHQYNLLLGLAAKMAEEpfrLLIVDSVIALFRVDFTgRGELAERQQKL-AQMLSR- 257
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 176 MRKLAgnlKQSNTLLIFINQIRMKIG--VMFGNPETTTGGNALKFYASVRLDIRRIGAikegdevvgsETRVKVVKNKIA 253
Cdd:PLN03187  258 LTKIA---EEFNVAVYMTNQVIADPGggMFISDPKKPAGGHVLAHAATIRLMLRKGKG----------EQRVCKVFDAPN 324
                         250
                  ....*....|....*....
gi 2509134732 254 APFKQAEFQIMYGeGINTF 272
Cdd:PLN03187  325 LPEAEAEFQITSG-GIMDA 342
Rad51 cd19513
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ...
41-228 1.08e-09

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: 58.10  E-value: 1.08e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  41 ISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTL--TLQV-----IASAQRKGKtCAFIDAEHALDPV----YAKKLG 109
Cdd:cd19513     1 ITTGSKELDKLLG-GGIETGSITELFGEFRTGKTQLchTLAVtcqlpIDQGGGEGK-ALYIDTEGTFRPErllaIAERYG 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 110 VD----IDNLLCSQP---DTGEQALEICDALARSGAVDVIIVDSVAALTpKAEIEGEiGDshmgLAARMM--SQAMRKLA 180
Cdd:cd19513    79 LNgedvLDNVAYARAyntDHQMQLLIQASAMMAESRYALLIVDSATALY-RTDYSGR-GE----LSARQMhlAKFLRMLQ 152
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2509134732 181 GNLKQSNTLLIFINQIRMKI--GVMF-GNPETTTGGNALKFYASVRLDIRR 228
Cdd:cd19513   153 RLADEFGVAVVITNQVVAQVdgAAMFaGDPKKPIGGNIMAHASTTRLYLRK 203
archRadA cd19515
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ...
41-228 2.90e-09

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: 56.60  E-value: 2.90e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  41 ISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRK------GKTCAFIDAEHALDP----VYAKKLGV 110
Cdd:cd19515     1 ISTGSKELDKLLG-GGIETQAITEVFGEFGSGKTQLCHQLAVNVQLPpeegglNGKAVYIDTENTFRPerimQMAKALGL 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 111 DIDNLL-----CSQPDTGEQAL---EICDALARSGAVDVIIVDSVAALTpKAEI--EGEIGDSHMGLAaRMMSQAMRklA 180
Cdd:cd19515    80 DPDEVLdniyvARAYNSNHQMLlveKAEDLIKEGNNIKLLIVDSLTSHF-RAEYvgRGTLAERQQKLN-KHLHDLHR--L 155
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 2509134732 181 GNLkqSNTLLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRR 228
Cdd:cd19515   156 ADL--YNIAVLVTNQVMAKPDAFFGDPTQAIGGHILGHAATFRVYLRK 201
ATPase pfam06745
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ...
41-230 5.01e-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: 56.10  E-value: 5.01e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  41 ISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQ-VIASAQRKGKTCAFIDA-EHALDPVY-AKKLGVDIDNLLc 117
Cdd:pfam06745   1 VKTGIPGLDEILK-GGFPEGRVVLITGGPGTGKTIFGLQfLYNGALKYGEPGVFVTLeEPPEDLREnARSFGWDLEKLE- 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 118 sqpDTGEqaLEICDALA-RSGAVDVIIVDSVAALTPK-AEIEGEIG------DSHMGLAAR----MMSQAMRKLAGNLKQ 185
Cdd:pfam06745  79 ---EEGK--LAIIDASTsGIGIAEVEDRFDLEELIERlREAIREIGakrvviDSITTLFYLlkpaVAREILRRLKRVLKG 153
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 2509134732 186 SNTLLIFINQIRMKigvmfgnpETTTGGNALKFYAS---VRLDIRRIG 230
Cdd:pfam06745 154 LGVTAIFTSEKPSG--------EGGIGGYGVEEFIVdgvIRLDLKEIE 193
XRCC3 cd19491
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ...
48-196 1.28e-08

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: 54.99  E-value: 1.28e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  48 LDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQR------KGKTCAFIDAEHAL-------------DPVYAKKL 108
Cdd:cd19491     1 LDELLG-GGIPVGGITEIAGESGAGKTQLCLQLALTVQLprelggLGGGAVYICTESSFpskrlqqlasslpKRYHLEKA 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 109 GVDIDN-LLCSQPDTgeQALEIC-----DALARSGAVDVIIVDSVAALtpkaeIEGEIGDSHMGLAARmmSQAMRKLAGN 182
Cdd:cd19491    80 KNFLDNiFVEHVADL--ETLEHClnyqlPALLERGPIRLVVIDSIAAL-----FRSEFDTSRSDLVER--AKYLRRLADH 150
                         170
                  ....*....|....*...
gi 2509134732 183 LKQ----SNTLLIFINQI 196
Cdd:cd19491   151 LKRladkYNLAVVVVNQV 168
recomb_RAD51 TIGR02239
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ...
34-274 4.41e-08

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: 53.96  E-value: 4.41e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  34 RSMDVETISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTL--TLQV-----IASAQRKGKtCAFIDAEHALDPV--- 103
Cdd:TIGR02239  71 RRQEVIQLTTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLchTLAVtcqlpIDQGGGEGK-ALYIDTEGTFRPErll 148
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 104 -YAKKLGVD----IDNLLCSQPDTGEQALEICD---ALARSGAVDVIIVDSVAALTpKAEIEGEiGDshmgLAARMMSQA 175
Cdd:TIGR02239 149 aIAERYGLNpedvLDNVAYARAYNTDHQLQLLQqaaAMMSESRFALLIVDSATALY-RTDFSGR-GE----LSARQMHLA 222
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 176 --MRKLAGNLKQSNTLLIFINQIRMKI---GVMF-GNPETTTGGNALKFYASVRLDIRRigaiKEGdevvgsETRVKVVK 249
Cdd:TIGR02239 223 rfLRSLQRLADEFGVAVVITNQVVAQVdgaGSMFaGDPKKPIGGNIMAHASTTRLSLRK----GRG------EQRICKIY 292
                         250       260
                  ....*....|....*....|....*
gi 2509134732 250 NKIAAPFKQAEFQImYGEGINTFGE 274
Cdd:TIGR02239 293 DSPCLPESEAMFAI-YEDGIGDPKE 316
PLN03186 PLN03186
DNA repair protein RAD51 homolog; Provisional
37-269 1.41e-07

DNA repair protein RAD51 homolog; Provisional


Pssm-ID: 178728 [Multi-domain]  Cd Length: 342  Bit Score: 52.43  E-value: 1.41e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  37 DVETISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQ-------RKGKtCAFIDAEHALDP----VYA 105
Cdd:PLN03186  101 EIIQITTGSRELDKILE-GGIETGSITEIYGEFRTGKTQLCHTLCVTCQlpldqggGEGK-AMYIDTEGTFRPqrliQIA 178
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 106 KKLGVD----IDNLLCSQPDTGEQALEICDALARSGA---VDVIIVDSVAALTpKAEIEGEiGDshmgLAARMMSQA--M 176
Cdd:PLN03186  179 ERFGLNgadvLENVAYARAYNTDHQSELLLEAASMMAetrFALMIVDSATALY-RTEFSGR-GE----LSARQMHLGkfL 252
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 177 RKLAGNLKQSNTLLIFINQIRMKI--GVMFGNPETT-TGGNALKFYASVRLdirrigAIKEGDevvgSETRVKVVKNKIA 253
Cdd:PLN03186  253 RSLQRLADEFGVAVVITNQVVAQVdgSAFFAGPQLKpIGGNIMAHASTTRL------ALRKGR----GENRICKVISSPC 322
                         250
                  ....*....|....*.
gi 2509134732 254 APFKQAEFQIMyGEGI 269
Cdd:PLN03186  323 LPEAEARFSIS-SEGV 337
KaiC-like cd01124
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ...
41-197 2.82e-07

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: 50.73  E-value: 2.82e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  41 ISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEHALDPVY--AKKLGVDID----- 113
Cdd:cd01124     1 VKTGIPGLDELLG-GGIPKGSVTLLTGGPGTGKTLFGLQFLYAGAKNGEPGLFFTFEESPERLLrnAKSFGWDFDemede 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 114 -NLLCSQPDTGEQALEICDALA-------RSGAVDVIIVDSVAALTPKAEiegeigdshmglAARMMSQAMRKLAGNLKQ 185
Cdd:cd01124    80 gKLIIVDAPPTEAGRFSLDELLsrilsiiKSFKAKRVVIDSLSGLRRAKE------------DQMRARRIVIALLNELRA 147
                         170
                  ....*....|..
gi 2509134732 186 SNTLLIFINQIR 197
Cdd:cd01124   148 AGVTTIFTSEMR 159
RadA_SMS_N cd01121
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ...
28-147 1.26e-06

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: 49.07  E-value: 1.26e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  28 MRLGEDRSMDVETISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEHALDPV--YA 105
Cdd:cd01121    51 LPLSDVEAEEEERISTGIGELDRVLG-GGLVPGSVVLIGGDPGIGKSTLLLQVAARLAQRGGKVLYVSGEESLSQIklRA 129
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2509134732 106 KKLGVDIDNLLCsqpdTGEQALEICDALARSGAVDVIIVDSV 147
Cdd:cd01121   130 ERLGLGSDNLYL----LAETNLEAILAEIEELKPSLVVIDSI 167
KaiC-like_N cd19488
N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ...
41-115 2.47e-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: 47.73  E-value: 2.47e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2509134732  41 ISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFI---DAEHALDPVyAKKLGVDIDNL 115
Cdd:cd19488     1 ISTGIPGLDDILR-GGLPPRRLYLVEGAPGTGKTTLALQFLLEGAANGETGLYItlsETEQELRAV-ALSHGWSLDGI 76
FlaH COG2874
Archaellum biogenesis ATPase ArlH/FlaH [Cell motility];
39-151 1.63e-05

Archaellum biogenesis ATPase ArlH/FlaH [Cell motility];


Pssm-ID: 442121  Cd Length: 230  Bit Score: 45.59  E-value: 1.63e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  39 ETISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEHA----LDPVYAkkLGVDID- 113
Cdd:COG2874     1 EIISTGNDELDKRLG-GGIPLGSLVLIEGENGTGKSVLSQQFAYGALENGLSVTYISTELTtkefIKQMKS--LSYDISd 77
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2509134732 114 ------------NLLCSQPDTGE-----QALEICDALARSGAvDVIIVDSVAALT 151
Cdd:COG2874    78 yllrgrllflpvHPLGFEWNSKQrkdllKRLMKYIASNLWEA-DVIIIDSLSALL 131
XRCC2 cd19490
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ...
60-201 2.42e-05

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: 45.03  E-value: 2.42e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  60 GRIVEIYGPESSGKTTLTLQVIASA----QRKGKTCA-------FIDAEHALDP-----VYAKKLGVDIDNLLCSQPDTG 123
Cdd:cd19490     1 GDVIEITGPSGSGKTELLYHLAARCilpsSWGGVPLGgleaavvFIDTDGRFDIlrlrsILEARIRAAIQAANSSDDEED 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732 124 -EQALEIC--------------------------DALARSGAVDVIIVDSVAALTPKAEIEGEIGdshmGLAARMMSQAM 176
Cdd:cd19490    81 vEEIAREClqrlhifrchsslqllatllslenylLSLSANPELGLLLIDSISAFYWQDRFSAELA----RAAPLLQEAAL 156
                         170       180
                  ....*....|....*....|....*....
gi 2509134732 177 RKLAGNLKQS----NTLLIFINQIRMKIG 201
Cdd:cd19490   157 RAILRELRRLrrrfQLVVIATKQALFPGK 185
RepA COG3598
RecA-family ATPase [Replication, recombination and repair];
57-180 2.87e-05

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


Pssm-ID: 442817 [Multi-domain]  Cd Length: 313  Bit Score: 45.28  E-value: 2.87e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  57 LPMGRIVEIYGPESSGKTTLTLQVIASA---------QRKGKTCAFIDAE---------------HALDPVYAKKLGVDI 112
Cdd:COG3598    10 LPEGGVTLLAGPPGTGKSFLALQLAAAVaaggpwlgrRVPPGKVLYLAAEddrgelrrrlkalgaDLGLPFADLDGRLRL 89
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2509134732 113 DNLLCSQPDTGE-QALEicdALARSGAVDVIIVDSVAALTPkaeiegeiGDSHMGLAARMMSQAMRKLA 180
Cdd:COG3598    90 LSLAGDLDDTDDlEALE---RAIEEEGPDLVVIDPLARVFG--------GDENDAEEMRAFLNPLDRLA 147
PRK06067 PRK06067
flagellar accessory protein FlaH; Validated
37-157 3.15e-05

flagellar accessory protein FlaH; Validated


Pssm-ID: 180381  Cd Length: 234  Bit Score: 44.58  E-value: 3.15e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  37 DVETISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAE--------------HALDP 102
Cdd:PRK06067    3 KKEIISTGNEELDRKLG-GGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTEntsksylkqmesvkIDISD 81
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2509134732 103 VYAK-KLGVDIDNLLCSQ--PDTGEQALEICDALARSGAVDVIIVDSVAALTPKAEIE 157
Cdd:PRK06067   82 FFLWgYLRIFPLNTEGFEwnSTLANKLLELIIEFIKSKREDVIIIDSLTIFATYAEED 139
KaiC_C cd19484
C-terminal domain of Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most ...
41-151 3.18e-05

C-terminal domain of 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: 410892 [Multi-domain]  Cd Length: 218  Bit Score: 44.63  E-value: 3.18e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  41 ISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEHALDPVY--AKKLGVD-----ID 113
Cdd:cd19484     1 ISTGIPRLDAMLGGGGFFRGSSILVSGATGTGKTLLAASFADAACRRGERCLYFAFEESPAQLIrnAKSIGIDleqmeRK 80
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 2509134732 114 NLL---CSQPDTG--EQALEICDALARSGAVDVIIVDSVAALT 151
Cdd:cd19484    81 GLLkiiCARPELYglEDHLIIIKSEINEFKPSRVIVDPLSALA 123
Rad51D cd19489
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ...
55-180 3.80e-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: 44.16  E-value: 3.80e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  55 GGLPMGRIVEIYGPESSGKTTLTLQVIAS-AQRKGKTCAFIDAEHALdpvYAKKLGvdidNLLCSQPDTGEQALEICDAL 133
Cdd:cd19489     2 GGLRTGEITELVGESSSGKTQLCLTAAANvASRSGQNVLYIDTKSSF---SARRLA----QILKSRAQDAEEIDKALQRI 74
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2509134732 134 ARSGAVD---------------------------VIIVDSVAAL-TPkaeIEGeiGDSHMGLAARMMSQA--MRKLA 180
Cdd:cd19489    75 RVVRVFDpyelldlleelrntlsqqqenlysrlkLVIIDSLSALiSP---LLG--GSKHSEGHALLASLArlLKKLA 146
AAA_22 pfam13401
AAA domain;
61-154 1.74e-04

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 40.79  E-value: 1.74e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  61 RIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEH-----ALDPVYAKKLGVDIDNLLCSQPDTGeqalEICDALAR 135
Cdd:pfam13401   6 GILVLTGESGTGKTTLLRRLLEQLPEVRDSVVFVDLPSgtspkDLLRALLRALGLPLSGRLSKEELLA----ALQQLLLA 81
                          90
                  ....*....|....*....
gi 2509134732 136 SGAVDVIIVDSVAALTPKA 154
Cdd:pfam13401  82 LAVAVVLIIDEAQHLSLEA 100
AAA_24 pfam13479
AAA domain; This AAA domain is found in a wide variety of presumed phage proteins.
59-179 1.21e-03

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: 1.21e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  59 MGRIVEIYGPESSGKTTLtlqvIASAQRKgktcAFIDAEHALDPVYAKKlGVDIDNllcsqPDTGEQALEICDALARSGA 138
Cdd:pfam13479   1 KKLKILIYGPSGIGKTTF----AKTLPKP----LFLDTEKGSKALDGDR-FPDIVI-----RDSWQDFLDAIDELTAAEL 66
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2509134732 139 V--DVIIVDSVAALTP--------KAEIEGEIGDSHM----GLAARMMSQAMRKL 179
Cdd:pfam13479  67 AdyKTIVIDTVDWLERlclayickQNGKGSSIEDGGYgkgyGELGEEFRRLLDAL 121
PRK09302 PRK09302
circadian clock protein KaiC; Reviewed
39-151 1.39e-03

circadian clock protein KaiC; Reviewed


Pssm-ID: 236461 [Multi-domain]  Cd Length: 509  Bit Score: 40.25  E-value: 1.39e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509134732  39 ETISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEHALDPVY--AKKLGVDI---- 112
Cdd:PRK09302  253 ERISSGVPDLDEMLG-GGFFRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEESRAQLIrnARSWGIDLekme 331
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2509134732 113 -DNLL---CSQPD-TG-EQALEICDALARSGAVDVIIVDSVAALT 151
Cdd:PRK09302  332 eKGLLkiiCARPEsYGlEDHLIIIKREIEEFKPSRVAIDPLSALA 376
KaiC-like_C cd19487
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ...
41-112 4.87e-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: 38.05  E-value: 4.87e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2509134732  41 ISTGSLSLDIALGaGGLPMGRIVEIYGPESSGKTTLTLQVIASAQRKGKTCAFIDAEHALDPVY--AKKLGVDI 112
Cdd:cd19487     1 VSSGVPELDELLG-GGLERGTSTLLIGPAGVGKSTLALQFAKAAAARGERSVLFSFDESIGTLFerSEALGIDL 73
PAXNEB pfam05625
PAXNEB protein; PAXNEB or PAX6 neighbour is found in several eukaryotic organizms. PAXNED is ...
40-75 8.23e-03

PAXNEB protein; PAXNEB or PAX6 neighbour is found in several eukaryotic organizms. PAXNED is an RNA polymerase II Elongator protein subunit. It is part of the HAP subcomplex of Elongator, which is a six-subunit component of the RNA polymerase II holoenzyme. The HAP subcomplex is required for Elongator structural integrity and histone acetyltransferase activity. This protein family has a P-loop-like motif and adopts a RecA-ATPase-like fold, lacking the conserved sequence signature of ATPases.


Pssm-ID: 461696  Cd Length: 359  Bit Score: 37.96  E-value: 8.23e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 2509134732  40 TISTGSLSLDIALGaGGLPMGRIVEIygpESSGKTT 75
Cdd:pfam05625  18 TTSTGTPSLDKLLG-GGLPLGSSLLI---EEDGTTD 49
 
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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