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Conserved domains on  [gi|4322538|gb|AAD16085|]
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recombination/repair protein RadA, partial [uncultured archaeon 'Obsidian Pool #3']

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
radA super family cl35256
DNA repair and recombination protein RadA; Validated
 1-131 2.62e-88

DNA repair and recombination protein RadA; Validated


The actual alignment was detected with superfamily member PRK04301:

Pssm-ID: 235273 [Multi-domain]  Cd Length: 317  Bit Score: 259.04  E-value: 2.62e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538     1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKIIER- 79
Cdd:PRK04301 117 QICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEALGLDPDEVLDNIHVARAYNSDHQMLLAEKAEELIKEg 196

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 4322538    80 ENIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:PRK04301 197 ENIKLVIVDSLTAHFRAEYVGRGNLAERQQKLNKHLHDLLRLADLYNAAVVV 248
 
Name Accession Description Interval E-value
radA PRK04301
DNA repair and recombination protein RadA; Validated
 1-131 2.62e-88

DNA repair and recombination protein RadA; Validated


Pssm-ID: 235273 [Multi-domain]  Cd Length: 317  Bit Score: 259.04  E-value: 2.62e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538     1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKIIER- 79
Cdd:PRK04301 117 QICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEALGLDPDEVLDNIHVARAYNSDHQMLLAEKAEELIKEg 196

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 4322538    80 ENIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:PRK04301 197 ENIKLVIVDSLTAHFRAEYVGRGNLAERQQKLNKHLHDLLRLADLYNAAVVV 248
archRadA cd19515
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ...
 1-131 2.05e-78

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: 231.10  E-value: 2.05e-78
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538    1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKII-ER 79
Cdd:cd19515  34 QLCHQLAVNVQLPPEEGGLNGKAVYIDTENTFRPERIMQMAKALGLDPDEVLDNIYVARAYNSNHQMLLVEKAEDLIkEG 113

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|..
gi 4322538   80 ENIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:cd19515 114 NNIKLLIVDSLTSHFRAEYVGRGTLAERQQKLNKHLHDLHRLADLYNIAVLV 165
recomb_radA TIGR02236
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA ...
 1-131 1.20e-76

DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 131290 [Multi-domain]  Cd Length: 310  Bit Score: 229.25  E-value: 1.20e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538      1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKIIE-- 78
Cdd:TIGR02236 110 QICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAEARGLDPDEVLKNIYVARAYNSNHQMLLVEKAEDLIKel 189

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 4322538     79 RENIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:TIGR02236 190 NNPVKLLIVDSLTSHFRAEYVGRGALAERQQKLNKHLHDLLRLADLYNAAVVV 242
Rad51 pfam08423
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ...
 1-131 6.01e-61

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: 187.51  E-value: 6.01e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538      1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKIIERE 80
Cdd:pfam08423  52 QLCHTLCVTCQLPLEMGGGEGKALYIDTEGTFRPERLVAIAERYGLDPEDVLDNVAYARAYNSEHQMQLLQQAAAMMSES 131

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 4322538     81 NIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:pfam08423 132 RFALLIVDSATALYRTDFSGRGELAERQQHLAKFLRTLQRLADEFGVAVVI 182
RepA COG3598
RecA-family ATPase [Replication, recombination and repair];
21-131 1.04e-10

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


Pssm-ID: 442817 [Multi-domain]  Cd Length: 313  Bit Score: 57.60  E-value: 1.04e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538   21 AKALYVDTENTFRP--ERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKIIERENIGLIVIDSLVAHFrsey 98
Cdd:COG3598  51 GKVLYLAAEDDRGElrRRLKALGADLGLPFADLDGRLRLLSLAGDLDDTDDLEALERAIEEEGPDLVVIDPLARVF---- 126

                        90       100       110
                ....*....|....*....|....*....|...
gi 4322538   99 PGRENLAERQQKLnhhIAQLLRIADIYNAAVVV 131
Cdd:COG3598 127 GGDENDAEEMRAF---LNPLDRLAERTGAAVLL 156
 
Name Accession Description Interval E-value
radA PRK04301
DNA repair and recombination protein RadA; Validated
 1-131 2.62e-88

DNA repair and recombination protein RadA; Validated


Pssm-ID: 235273 [Multi-domain]  Cd Length: 317  Bit Score: 259.04  E-value: 2.62e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538     1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKIIER- 79
Cdd:PRK04301 117 QICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEALGLDPDEVLDNIHVARAYNSDHQMLLAEKAEELIKEg 196

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 4322538    80 ENIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:PRK04301 197 ENIKLVIVDSLTAHFRAEYVGRGNLAERQQKLNKHLHDLLRLADLYNAAVVV 248
archRadA cd19515
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ...
 1-131 2.05e-78

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: 231.10  E-value: 2.05e-78
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538    1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKII-ER 79
Cdd:cd19515  34 QLCHQLAVNVQLPPEEGGLNGKAVYIDTENTFRPERIMQMAKALGLDPDEVLDNIYVARAYNSNHQMLLVEKAEDLIkEG 113

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|..
gi 4322538   80 ENIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:cd19515 114 NNIKLLIVDSLTSHFRAEYVGRGTLAERQQKLNKHLHDLHRLADLYNIAVLV 165
recomb_radA TIGR02236
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA ...
 1-131 1.20e-76

DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 131290 [Multi-domain]  Cd Length: 310  Bit Score: 229.25  E-value: 1.20e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538      1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKIIE-- 78
Cdd:TIGR02236 110 QICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAEARGLDPDEVLKNIYVARAYNSNHQMLLVEKAEDLIKel 189

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 4322538     79 RENIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:TIGR02236 190 NNPVKLLIVDSLTSHFRAEYVGRGALAERQQKLNKHLHDLLRLADLYNAAVVV 242
Rad51 pfam08423
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ...
 1-131 6.01e-61

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: 187.51  E-value: 6.01e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538      1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKIIERE 80
Cdd:pfam08423  52 QLCHTLCVTCQLPLEMGGGEGKALYIDTEGTFRPERLVAIAERYGLDPEDVLDNVAYARAYNSEHQMQLLQQAAAMMSES 131

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 4322538     81 NIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:pfam08423 132 RFALLIVDSATALYRTDFSGRGELAERQQHLAKFLRTLQRLADEFGVAVVI 182
Rad51_DMC1_archRadA cd01123
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ...
 1-131 3.27e-58

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: 180.03  E-value: 3.27e-58
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538    1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKIIERE 80
Cdd:cd01123  34 QLCHTLAVTCQLPIDRGGGEGKAIYIDTEGTFRPERLRAIAQRFGLDPDDVLDNVAYARAFNSDHQTQLLDQAAAMMVES 113

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 4322538   81 NIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:cd01123 114 RFKLLIVDSATALYRTDYSGRGELSARQMHLAKFLRMLQRLADEFGVAVVV 164
PTZ00035 PTZ00035
Rad51 protein; Provisional
 1-131 1.28e-57

Rad51 protein; Provisional


Pssm-ID: 185407 [Multi-domain]  Cd Length: 337  Bit Score: 181.35  E-value: 1.28e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538     1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQM-MIIEESRKIIEr 79
Cdd:PTZ00035 133 QLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIVQIAERFGLDPEDVLDNIAYARAYNHEHQMqLLSQAAAKMAE- 211

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 4322538    80 ENIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:PTZ00035 212 ERFALLIVDSATALFRVDYSGRGELAERQQHLGKFLRALQKLADEFNVAVVI 263
Rad51 cd19513
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ...
 1-131 8.96e-55

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: 170.96  E-value: 8.96e-55
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538    1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKIIERE 80
Cdd:cd19513  34 QLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIAERYGLNGEDVLDNVAYARAYNTDHQMQLLIQASAMMAES 113

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 4322538   81 NIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:cd19513 114 RYALLIVDSATALYRTDYSGRGELSARQMHLAKFLRMLQRLADEFGVAVVI 164
DMC1 cd19514
homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in ...
 1-131 1.82e-54

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: 170.23  E-value: 1.82e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538    1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEE-SRKIIER 79
Cdd:cd19514  34 QLSHTLCVTAQLPGSMGGGGGKVAYIDTEGTFRPDRIRPIAERFGVDHDAVLDNILYARAYTSEHQMELLDYvAAKFHEE 113

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|..
gi 4322538   80 ENIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:cd19514 114 AVFRLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEYNVAVFI 165
recomb_DMC1 TIGR02238
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ...
 1-131 1.06e-49

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: 160.71  E-value: 1.06e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538      1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKIIERE 80
Cdd:TIGR02238 111 QLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAERFGVDPDAVLDNILYARAYTSEHQMELLDYLAAKFSEE 190

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 4322538     81 NIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:TIGR02238 191 PFRLLIVDSIMALFRVDFSGRGELSERQQKLAQMLSRLNKISEEFNVAVFV 241
recomb_RAD51 TIGR02239
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ...
 1-131 1.95e-47

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: 154.88  E-value: 1.95e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538      1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKIIERE 80
Cdd:TIGR02239 111 QLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIAERYGLNPEDVLDNVAYARAYNTDHQLQLLQQAAAMMSES 190

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 4322538     81 NIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:TIGR02239 191 RFALLIVDSATALYRTDFSGRGELSARQMHLARFLRSLQRLADEFGVAVVI 241
PLN03186 PLN03186
DNA repair protein RAD51 homolog; Provisional
 1-131 3.88e-46

DNA repair protein RAD51 homolog; Provisional


Pssm-ID: 178728 [Multi-domain]  Cd Length: 342  Bit Score: 152.19  E-value: 3.88e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538     1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKIIERE 80
Cdd:PLN03186 138 QLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQIAERFGLNGADVLENVAYARAYNTDHQSELLLEAASMMAET 217

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 4322538    81 NIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:PLN03186 218 RFALMIVDSATALYRTEFSGRGELSARQMHLGKFLRSLQRLADEFGVAVVI 268
PLN03187 PLN03187
meiotic recombination protein DMC1 homolog; Provisional
 1-131 6.44e-46

meiotic recombination protein DMC1 homolog; Provisional


Pssm-ID: 215620 [Multi-domain]  Cd Length: 344  Bit Score: 151.85  E-value: 6.44e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538     1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIAKYRGLDPQEALRNILYARAYNSDHQM-MIIEESRKIIEr 79
Cdd:PLN03187 141 QLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIAERFGMDADAVLDNIIYARAYTYEHQYnLLLGLAAKMAE- 219

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 4322538    80 ENIGLIVIDSLVAHFRSEYPGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:PLN03187 220 EPFRLLIVDSVIALFRVDFTGRGELAERQQKLAQMLSRLTKIAEEFNVAVYM 271
RecA-like cd01393
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 1-131 3.12e-31

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: 109.36  E-value: 3.12e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538    1 QLCHQLSVMVQLPEdkgglnAKALYVDTENTFRPER---IMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEES-RKI 76
Cdd:cd01393  16 QLALQLAANALLLG------GGVVWIDTEGAFPPSRlvqILEASPSSELELAEALSRLLYFRPPDTLAHLLALDSLpESL 89

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 4322538   77 IERENIGLIVIDSLVAHFRSEYP----GRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:cd01393  90 FPPPNTSLVVVDSVSALFRKAFPrggdGDSSSSLRARLLSQLARALQKLAAQFNLAVVV 148
XRCC3 cd19491
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ...
 1-131 2.17e-29

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: 106.61  E-value: 2.17e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538    1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPERIMQIA-----KYRGLDPQEALRNILYARAYNSDHQMMIIEESRK 75
Cdd:cd19491  27 QLCLQLALTVQLPRELGGLGGGAVYICTESSFPSKRLQQLAsslpkRYHLEKAKNFLDNIFVEHVADLETLEHCLNYQLP 106

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 4322538   76 I-IERENIGLIVIDSLVAHFRSEY-PGRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:cd19491 107 AlLERGPIRLVVIDSIAALFRSEFdTSRSDLVERAKYLRRLADHLKRLADKYNLAVVV 164
Rad51C cd19492
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 1-131 7.09e-23

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


Pssm-ID: 410900 [Multi-domain]  Cd Length: 172  Bit Score: 87.66  E-value: 7.09e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538    1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFrperimqiakyrgldpqealrNILYARAYNSDHQMMIIEE-SRKIIER 79
Cdd:cd19492  16 QLCMQLAVNVQIPKCFGGLAGEAIYIDTEGSF---------------------NIHYFRVHDYVELLALINSlPKFLEDH 74

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|..
gi 4322538   80 ENIGLIVIDSLVAHFRSEYpgrENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:cd19492  75 PKVKLIVVDSIAFPFRHDF---DDLAQRTRLLNGLAQLLHSLARQHNLAVVL 123
radB PRK09361
DNA repair and recombination protein RadB; Provisional
 22-131 4.07e-22

DNA repair and recombination protein RadB; Provisional


Pssm-ID: 236482 [Multi-domain]  Cd Length: 225  Bit Score: 87.22  E-value: 4.07e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538    22 KALYVDTENtFRPERIMQIAkyrGLDPQEALRNILYARAYNSDHQMMIIEESRKIIErENIGLIVIDSLVAHFRSEYPGR 101
Cdd:PRK09361  53 KVIYIDTEG-LSPERFKQIA---GEDFEELLSNIIIFEPSSFEEQSEAIRKAEKLAK-ENVGLIVLDSATSLYRLELEDE 127

                         90       100       110
                 ....*....|....*....|....*....|
gi 4322538   102 ENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:PRK09361 128 EDNSKLNRELGRQLTHLLKLARKHDLAVVI 157
archRadB cd01394
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ...
 2-131 2.36e-20

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


Pssm-ID: 410882 [Multi-domain]  Cd Length: 216  Bit Score: 82.36  E-value: 2.36e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538    2 LCHQLSVMVQlpedKGGLnaKALYVDTENtFRPERIMQIAkyrGLDPQEALRNILYARAYNSDHQMMIIEESRKIIEREN 81
Cdd:cd01394  35 ICLQLAVEAA----KQGK--KVVYIDTEG-LSPERFQQIA---GERFESIASNIIVFEPYSFDEQGVAIQEAEKLLKSDK 104

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|
gi 4322538   82 IGLIVIDSLVAHFRSEypgRENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:cd01394 105 VDLVVVDSATALYRLE---LGDDSEANRELSRQMSKLLSIARKYDIPVVI 151
Rad51B cd19493
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 1-131 2.97e-18

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: 76.97  E-value: 2.97e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538    1 QLCHQLSVMVQLPEDKGGLNAKALYVDTENTFRPER--IMQIAKYR---------GLDPQEALRNILYARAYNSDHQMMI 69
Cdd:cd19493  26 QFALTLASSAAMPARKGGLDGGVLYIDTESKFSAERlaEIAEARFPeafsgfmeeNERAEEMLKRVAVVRVTTLAQLLER 105

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 4322538   70 IEESRKIIERENIGLIVIDSLVAHFRSEYPG-RENLAERQQKLNHHIAQLLRIADIYNAAVVV 131
Cdd:cd19493 106 LPNLEEHILSSGVRLVVIDSIAALVRREFGGsDGEVTERHNALAREASSLKRLAEEFRIAVLV 168
Rad51D cd19489
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 1-131 1.56e-11

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: 58.80  E-value: 1.56e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538    1 QLCHQLSVMVQLpedkgGLNAKALYVDTENTFRPERIMQIAKYRGLD---PQEALRNILYARAYNSDHQMMIIEESRKII 77
Cdd:cd19489  22 QLCLTAAANVAS-----RSGQNVLYIDTKSSFSARRLAQILKSRAQDaeeIDKALQRIRVVRVFDPYELLDLLEELRNTL 96

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 4322538   78 ERE------NIGLIVIDSLVAHF---RSEYPGRENLAErqqkLNHHIAQLLRIADIYNAAVVV 131
Cdd:cd19489  97 SQQqenlysRLKLVIIDSLSALIsplLGGSKHSEGHAL----LASLARLLKKLAAEYQIAVLV 155
RepA COG3598
RecA-family ATPase [Replication, recombination and repair];
21-131 1.04e-10

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


Pssm-ID: 442817 [Multi-domain]  Cd Length: 313  Bit Score: 57.60  E-value: 1.04e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538   21 AKALYVDTENTFRP--ERIMQIAKYRGLDPQEALRNILYARAYNSDHQMMIIEESRKIIERENIGLIVIDSLVAHFrsey 98
Cdd:COG3598  51 GKVLYLAAEDDRGElrRRLKALGADLGLPFADLDGRLRLLSLAGDLDDTDDLEALERAIEEEGPDLVVIDPLARVF---- 126

                        90       100       110
                ....*....|....*....|....*....|...
gi 4322538   99 PGRENLAERQQKLnhhIAQLLRIADIYNAAVVV 131
Cdd:COG3598 127 GGDENDAEEMRAF---LNPLDRLAERTGAAVLL 156
RecA COG0468
RecA/RadA recombinase [Replication, recombination and repair];
1-130 9.05e-10

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


Pssm-ID: 440236 [Multi-domain]  Cd Length: 351  Bit Score: 54.79  E-value: 9.05e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538    1 QLCHQLSVMVQLpedKGGLnakALYVDTENTFRPERimqiAKYRGLDPQealrNILYARAYNSDHQMMIIEEsrkIIERE 80
Cdd:COG0468  78 TLALHAIAEAQK---AGGI---AAFIDAEHALDPEY----AKKLGVDID----NLLVSQPDTGEQALEIAET---LVRSG 140

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....
gi 4322538   81 NIGLIVIDSLVAHF-RSEYPGREN---LAERQQKLNHHIAQLLRIADIYNAAVV 130
Cdd:COG0468 141 AVDLIVVDSVAALVpKAEIEGEMGdshVGLQARLMSQALRKLTGAISKSNTTVI 194
XRCC2 cd19490
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ...
 17-120 1.21e-07

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


Pssm-ID: 410898 [Multi-domain]  Cd Length: 226  Bit Score: 48.50  E-value: 1.21e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538   17 GGLNAKALYVDTENTFRPERIMQIAKYRGLDPQ-----------------EALRNILYARAYNSDHQMMIIE--ESR--K 75
Cdd:cd19490  37 GGLEAAVVFIDTDGRFDILRLRSILEARIRAAIqaanssddeedveeiarECLQRLHIFRCHSSLQLLATLLslENYllS 116

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*...
gi 4322538   76 IIERENIGLIVIDSLVAHFRSEYPGRENLAERQQKLN---HHIAQLLR 120
Cdd:cd19490 117 LSANPELGLLLIDSISAFYWQDRFSAELARAAPLLQEaalRAILRELR 164
RAD55 COG0467
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
22-90 7.86e-04

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


Pssm-ID: 440235 [Multi-domain]  Cd Length: 221  Bit Score: 37.59  E-value: 7.86e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 4322538   22 KALYVDTENtfRPERIMQIAKYRGLDPQEALRN----ILYARAYNSDHQM-MIIEESRKIIERENIGLIVIDSL 90
Cdd:COG0467  50 KGLYVSFEE--SPEQLLRRAESLGLDLEEYIESgllrIIDLSPEELGLDLeELLARLREAVEEFGAKRVVIDSL 121
AAA_25 pfam13481
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins.
 20-131 8.52e-04

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


Pssm-ID: 463892 [Multi-domain]  Cd Length: 193  Bit Score: 37.36  E-value: 8.52e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538     20 NAKALYVDTENTFR--PERIMQIAKYRGLD------PQEALRNILYARAYNSDHQMMIIEESRKIIERENIGLIVIDSLV 91
Cdd:pfam13481  72 QGKVLYVSAEGPADelRRRLRAAGADLDLParllflSLVESLPLFFLDRGGPLLDADVDALEAALEEVEDPDLVVIDPLA 151

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 4322538     92 -AHFRSEYPGREnlaerqqkLNHHIAQLLRIADIYNAAVVV 131
Cdd:pfam13481 152 rALGGDENSNSD--------VGRLVKALDRLARRTGATVLL 184
RepA_RSF1010_like cd01125
Hexameric Replicative Helicase RepA of plasmid RSF1010 and related proteins; This family ...
 35-131 2.80e-03

Hexameric Replicative Helicase RepA of plasmid RSF1010 and related proteins; This family includes the homo-hexameric replicative helicase RepA encoded by plasmid RSF1010. RSF1010 is found in most Gram-negative bacteria and some Gram-positive bacteria . The RepA protein of Plasmid RSF1010 is a 5'-3' DNA helicase which can utilize ATP, dATP, GTP and dGTP (and CTP and dCTP to a lesser extent).


Pssm-ID: 410870  Cd Length: 238  Bit Score: 36.21  E-value: 2.80e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4322538   35 ERIMQIAKYRGLDPQEALRNILYARAYNSdhQMMIIEESRKII----ERENIGLIVIDSLVahfRSEYPGRENLAERQqk 110
Cdd:cd01125  56 RRLKAIGAHLGDEDAALAENLVIENLRGK--PVSIDAEAPELEriieELEGVRLIIIDTLA---RVLHGGDENDAADM-- 128

                        90       100
                ....*....|....*....|.
gi 4322538  111 lNHHIAQLLRIADIYNAAVVV 131
Cdd:cd01125 129 -GAFVAGLDRIARETGAAVLL 148
 
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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