|
Name |
Accession |
Description |
Interval |
E-value |
| recA |
PRK09354 |
recombinase A; Provisional |
1-344 |
0e+00 |
|
recombinase A; Provisional
Pssm-ID: 236476 [Multi-domain] Cd Length: 349 Bit Score: 698.47 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 1 MDSNRSKALSAALGQIEKQFGKGAIMRLGDNQAMDIEAISTGSLTIDIALGIGGLPCGRVVEIYGPEASGKTTLTLQVIA 80
Cdd:PRK09354 3 MDEEKQKALEAALKQIEKQFGKGSIMRLGDDAAMDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIA 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 81 EAQKKGKTCAFVDAEHALDPIYASKLGVNIDELLVSQPDTGEQALEICDMLVRSGGVDVVIVDSVAALTPKAEIEGDMGD 160
Cdd:PRK09354 83 EAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEMGD 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 161 SHVGLQARLMSQALRKLTGNIKRSNTLCIFINQIRMKIGVMFGSPETTTGGNALKFYSSVRLDIRRIGAVKEGDEVVGNE 240
Cdd:PRK09354 163 SHVGLQARLMSQALRKLTGNISKSNTTVIFINQIREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDGDEVIGNR 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 241 TRVKVVKNKVAPPFKQAEFMIRYGEGISKEAELIDLGVKQKLVDKAGAWYSYKGDRIGQGKANVMKFLKENPAIADEIEK 320
Cdd:PRK09354 243 TKVKVVKNKVAPPFKQAEFDIMYGEGISREGELIDLGVELGIIEKSGAWYSYNGEKIGQGRENAKQYLKENPELADEIEK 322
|
330 340
....*....|....*....|....
gi 1552476847 321 QIRAELLLPKTVKVEEAPAAEDDA 344
Cdd:PRK09354 323 KIREKLGLSAAAAEEEEEEDEEEE 346
|
|
| RecA |
COG0468 |
RecA/RadA recombinase [Replication, recombination and repair]; |
1-344 |
0e+00 |
|
RecA/RadA recombinase [Replication, recombination and repair];
Pssm-ID: 440236 [Multi-domain] Cd Length: 351 Bit Score: 681.90 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 1 MDSNRSKALSAALGQIEKQFGKGAIMRLGDNQAMDIEAISTGSLTIDIALGIGGLPCGRVVEIYGPEASGKTTLTLQVIA 80
Cdd:COG0468 6 ASSEKEKALEAALSQIEKQFGKGSIMRLGDKARQDVEVISTGSLALDIALGVGGLPRGRIVEIYGPESSGKTTLALHAIA 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 81 EAQKKGKTCAFVDAEHALDPIYASKLGVNIDELLVSQPDTGEQALEICDMLVRSGGVDVVIVDSVAALTPKAEIEGDMGD 160
Cdd:COG0468 86 EAQKAGGIAAFIDAEHALDPEYAKKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDLIVVDSVAALVPKAEIEGEMGD 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 161 SHVGLQARLMSQALRKLTGNIKRSNTLCIFINQIRMKIGVMFGSPETTTGGNALKFYSSVRLDIRRIGAVKEGDEVVGNE 240
Cdd:COG0468 166 SHVGLQARLMSQALRKLTGAISKSNTTVIFINQLREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDGDEVIGNR 245
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 241 TRVKVVKNKVAPPFKQAEFMIRYGEGISKEAELIDLGVKQKLVDKAGAWYSYKGDRIGQGKANVMKFLKENPAIADEIEK 320
Cdd:COG0468 246 TRVKVVKNKVAPPFKEAEFDIMYGEGISKEGELLDLAVELGIIEKSGAWYSYGGERLGQGRENAKQFLKENPELAEEIEA 325
|
330 340
....*....|....*....|....
gi 1552476847 321 QIRAELLLPKTVKVEEAPAAEDDA 344
Cdd:COG0468 326 KIREKLGLGAVSEAAAAEEEEDEE 349
|
|
| tigrfam_recA |
TIGR02012 |
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization ... |
4-324 |
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: 608.99 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 4 NRSKALSAALGQIEKQFGKGAIMRLGDNQAMDIEAISTGSLTIDIALGIGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQ 83
Cdd:TIGR02012 1 DKQKALEAALAQIEKQFGKGSIMRLGEKTVMDVETISTGSLALDLALGVGGLPKGRIIEIYGPESSGKTTLALHAIAEAQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 84 KKGKTCAFVDAEHALDPIYASKLGVNIDELLVSQPDTGEQALEICDMLVRSGGVDVVIVDSVAALTPKAEIEGDMGDSHV 163
Cdd:TIGR02012 81 KAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDIIVVDSVAALVPKAEIEGEMGDSHV 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 164 GLQARLMSQALRKLTGNIKRSNTLCIFINQIRMKIGVMFGSPETTTGGNALKFYSSVRLDIRRIGAVKEGDEVVGNETRV 243
Cdd:TIGR02012 161 GLQARLMSQALRKLTGALSKSNTTAIFINQIREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTVKQGEEVVGNRTKV 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 244 KVVKNKVAPPFKQAEFMIRYGEGISKEAELIDLGVKQKLVDKAGAWYSYKGDRIGQGKANVMKFLKENPAIADEIEKQIR 323
Cdd:TIGR02012 241 KVVKNKVAPPFREAEFDILYGEGISKLGEIIDLAVELDIIKKSGSWYSYGDEKLGQGRENAKAFLKENPELAQEIEKKVR 320
|
.
gi 1552476847 324 A 324
Cdd:TIGR02012 321 E 321
|
|
| RecA |
pfam00154 |
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ... |
7-268 |
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: 521.96 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 7 KALSAALGQIEKQFGKGAIMRLGDNQAMDIEAISTGSLTIDIALGIGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQKKG 86
Cdd:pfam00154 1 KALEAALKQIEKQFGKGSIMKLGDEKKLDVETISTGSLALDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKAG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 87 KTCAFVDAEHALDPIYASKLGVNIDELLVSQPDTGEQALEICDMLVRSGGVDVVIVDSVAALTPKAEIEGDMGDSHVGLQ 166
Cdd:pfam00154 81 GTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADMLVRSGAIDLIVVDSVAALVPKAEIEGEMGDSHVGLQ 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 167 ARLMSQALRKLTGNIKRSNTLCIFINQIRMKIGVMFGSPETTTGGNALKFYSSVRLDIRRIGAVKEGDEVVGNETRVKVV 246
Cdd:pfam00154 161 ARLMSQALRKLTGSISKSNTTVIFINQIREKIGVMFGNPETTTGGRALKFYASVRLDIRRIGQIKQGEEVIGNKTKVKVV 240
|
250 260
....*....|....*....|..
gi 1552476847 247 KNKVAPPFKQAEFMIRYGEGIS 268
Cdd:pfam00154 241 KNKVAPPFKEAEFDIMYGEGIS 262
|
|
| RecA |
cd00983 |
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
35-269 |
8.83e-169 |
|
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: 468.96 E-value: 8.83e-169
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 35 DIEAISTGSLTIDIALGIGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYASKLGVNIDELL 114
Cdd:cd00983 1 DVEVIPTGSLSLDIALGIGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKLGGTAAFIDAEHALDPEYAKKLGVDIDNLL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 115 VSQPDTGEQALEICDMLVRSGGVDVVIVDSVAALTPKAEIEGDMGDSHVGLQARLMSQALRKLTGNIKRSNTLCIFINQI 194
Cdd:cd00983 81 VSQPDTGEQALEIADTLIRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSLSKSKTTVIFINQL 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1552476847 195 RMKIGVMFGSPETTTGGNALKFYSSVRLDIRRIGAVKEGDEVVGNETRVKVVKNKVAPPFKQAEFMIRYGEGISK 269
Cdd:cd00983 161 REKIGVMFGNPETTTGGNALKFYASVRLDIRRIELIKEGEDVIGNRTKVKVVKNKVAPPFKQAEFDILYGEGISR 235
|
|
| recA |
PRK09519 |
intein-containing recombinase RecA; |
4-249 |
1.18e-119 |
|
intein-containing recombinase RecA;
Pssm-ID: 77219 [Multi-domain] Cd Length: 790 Bit Score: 363.26 E-value: 1.18e-119
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 4 NRSKALSAALGQIEKQFGKGAIMRLGDNQAMDIEAISTGSLTIDIALGIGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQ 83
Cdd:PRK09519 6 DREKALELAVAQIEKSYGKGSVMRLGDEARQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 84 KKGKTCAFVDAEHALDPIYASKLGVNIDELLVSQPDTGEQALEICDMLVRSGGVDVVIVDSVAALTPKAEIEGDMGDSHV 163
Cdd:PRK09519 86 AAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGALDIVVIDSVAALVPRAELEGEMGDSHV 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 164 GLQARLMSQALRKLTGNIKRSNTLCIFINQIRMKIGVMFGSPETTTGGNALKFYSSVRLDIRRIGAVKEGDEVVGNETRV 243
Cdd:PRK09519 166 GLQARLMSQALRKMTGALNNSGTTAIFINQLRDKIGVMFGSPETTTGGKALKFYASVRMDVRRVETLKDGTNAVGNRTRV 245
|
....*.
gi 1552476847 244 KVVKNK 249
Cdd:PRK09519 246 KVVKNK 251
|
|
| RecA-like |
cd01393 |
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
58-226 |
1.22e-55 |
|
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: 179.86 E-value: 1.22e-55
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 58 GRVVEIYGPEASGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYA-----------SKLGVNIDELLVSQPDTGEQALE 126
Cdd:cd01393 1 GKITEIYGPPGSGKTQLALQLAANALLLGGGVVWIDTEGAFPPSRLvqileaspsseLELAEALSRLLYFRPPDTLAHLL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 127 ICDMLVR----SGGVDVVIVDSVAALTPKAEIEGDMGDSHVGLQARLMSQALRKLTGNIKRSNTLCIFINQIRMKIGVMF 202
Cdd:cd01393 81 ALDSLPEslfpPPNTSLVVVDSVSALFRKAFPRGGDGDSSSSLRARLLSQLARALQKLAAQFNLAVVVTNQVTTKIRGGS 160
|
170 180
....*....|....*....|....*
gi 1552476847 203 G-SPETTTGGNALKFYSSVRLDIRR 226
Cdd:cd01393 161 GaSLVPPALGNTWEHSVSTRLLLYR 185
|
|
| recA |
PRK09519 |
intein-containing recombinase RecA; |
245-326 |
3.02e-25 |
|
intein-containing recombinase RecA;
Pssm-ID: 77219 [Multi-domain] Cd Length: 790 Bit Score: 106.72 E-value: 3.02e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 245 VVKNKVAPPFKQAEFMIRYGEGISKEAELIDLGVKQKLVDKAGAWYSYKGDRIGQGKANVMKFLKENPAIADEIEKQIRA 324
Cdd:PRK09519 687 VVVHNCSPPFKQAEFDILYGKGISREGSLIDMGVDQGLIRKSGAWFTYEGEQLGQGKENARNFLVENADVADEIEKKIKE 766
|
..
gi 1552476847 325 EL 326
Cdd:PRK09519 767 KL 768
|
|
| archRadB |
cd01394 |
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ... |
39-261 |
1.41e-18 |
|
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional homologue to the bacterial RecA. The precise function of RadB is unclear.
Pssm-ID: 410882 [Multi-domain] Cd Length: 216 Bit Score: 83.13 E-value: 1.41e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 39 ISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQKKGKTCAFVDAEhALDP-----IYASKLGVNIDEL 113
Cdd:cd01394 1 LSTGSKSLDSLLG-GGVERGTITQIYGPPGSGKTNICLQLAVEAAKQGKKVVYIDTE-GLSPerfqqIAGERFESIASNI 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 114 LVSQP-DTGEQALEICDM--LVRSGGVDVVIVDSVAALTpKAEiegDMGDShvGLQARLMSQaLRKLTGNIKRSNTLCIF 190
Cdd:cd01394 79 IVFEPySFDEQGVAIQEAekLLKSDKVDLVVVDSATALY-RLE---LGDDS--EANRELSRQ-MSKLLSIARKYDIPVVI 151
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1552476847 191 INQIRMKIGVMFGSPettTGGNALKFYSSVRLDIrrigavkegDEVVGNETRVKVVKNKVAPPFKQAEFMI 261
Cdd:cd01394 152 TNQVYSDIDDDRLKP---VGGTLLEHWSKAIIRL---------EKSPPGLRRATLEKHRSRPEGQSAGFRI 210
|
|
| RAD55 |
COG0467 |
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms]; |
39-206 |
5.52e-14 |
|
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
Pssm-ID: 440235 [Multi-domain] Cd Length: 221 Bit Score: 70.33 E-value: 5.52e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 39 ISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPI--YASKLGVNIDELL-- 114
Cdd:COG0467 2 VPTGIPGLDELLG-GGLPRGSSTLLSGPPGTGKTTLALQFLAEGLRRGEKGLYVSFEESPEQLlrRAESLGLDLEEYIes 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 115 ----VSQPDTGEQALEICDML------VRSGGVDVVIVDSVAALTPKAEIEGDmgdshvglqARLMsqaLRKLTGNIKRS 184
Cdd:COG0467 81 gllrIIDLSPEELGLDLEELLarlreaVEEFGAKRVVIDSLSGLLLALPDPER---------LREF---LHRLLRYLKKR 148
|
170 180
....*....|....*....|..
gi 1552476847 185 NTLCIFINQIRMKIGVMFGSPE 206
Cdd:COG0467 149 GVTTLLTSETGGLEDEATEGGL 170
|
|
| recomb_radB |
TIGR02237 |
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ... |
46-261 |
8.21e-14 |
|
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: 69.37 E-value: 8.21e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 46 IDIALGiGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQKKGKTCAFVDAEhALDP-----IYASKLGVNIDELLVSQP-D 119
Cdd:TIGR02237 1 IDELLG-GGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTE-GLSPerfkqIAEDRPERALSNFIVFEVfD 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 120 TGEQALEICDM--LVRSGGVDVVIVDSVAALTpKAEIEGDMGDSHVGLQARLmsQALRKLTgniKRSNTLCIFINQIRMK 197
Cdd:TIGR02237 79 FDEQGVAIQKTskFIDRDSASLVVVDSFTALY-RLELSDDRISRNRELARQL--TLLLSLA---RKKNLAVVITNQVYTD 152
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1552476847 198 IGVMFGSPettTGGNALKFYSSVRLDIRRigavkegdevvGNETRVKVV-KNKVAPPFKQAEFMI 261
Cdd:TIGR02237 153 VNNGTLRP---LGGHLLEHWSKVILRLEK-----------FRGRRLATLeKHRSRPEGESVYFRI 203
|
|
| COG4544 |
COG4544 |
Uncharacterized conserved protein [Function unknown]; |
22-152 |
2.17e-13 |
|
Uncharacterized conserved protein [Function unknown];
Pssm-ID: 443609 [Multi-domain] Cd Length: 230 Bit Score: 68.80 E-value: 2.17e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 22 KGAIMRLGDNQAMDIEAISTGSLTIDIALGIGGLPCGRVVEIYGPEA-SGKTTLTLQVIAEAQKKGKTCAFVDAEHALdp 100
Cdd:COG4544 12 RRRIWRGEGLAAAARAVLPTGFAALDAALPGGGLPRGALHEILGPAPgIGELGLLLPLLARLAQAGGPVLWIAPPYDL-- 89
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*
gi 1552476847 101 iYA---SKLGVNIDELLVSQPDTGEQALEICDMLVRSGGVDVVIVDsVAALTPKA 152
Cdd:COG4544 90 -YApglAAAGLDPERLLLVRARRPADALWAAEEALRSGACGAVVAW-LERLDLTA 142
|
|
| radB |
PRK09361 |
DNA repair and recombination protein RadB; Provisional |
36-261 |
3.88e-11 |
|
DNA repair and recombination protein RadB; Provisional
Pssm-ID: 236482 [Multi-domain] Cd Length: 225 Bit Score: 62.19 E-value: 3.88e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 36 IEAISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQKKGKTCAFVDAEhALDPIYASKL-GVNIDELL 114
Cdd:PRK09361 2 DERLPTGCKMLDELLG-GGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE-GLSPERFKQIaGEDFEELL 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 115 ----VSQP-DTGEQALEICDM--LVRSgGVDVVIVDSVAALTpKAEIEGDMGDShvGLQARLMSQaLRKLTGNIKRSNTL 187
Cdd:PRK09361 80 sniiIFEPsSFEEQSEAIRKAekLAKE-NVGLIVLDSATSLY-RLELEDEEDNS--KLNRELGRQ-LTHLLKLARKHDLA 154
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1552476847 188 CIFINQIRMKIGVMFGSPettTGGNALKFYSSVRLDIRRIGavkegdevvGNETRVKVVKNKVAPPFKQAEFMI 261
Cdd:PRK09361 155 VVITNQVYSDIDSDGLRP---LGGHTLEHWSKTILRLEKFR---------NGKRRATLEKHRSRPEGESAEFRI 216
|
|
| Rad51B |
cd19493 |
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
47-228 |
9.12e-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: 9.12e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 47 DIALGiGGLPCGRVVEIYGPEASGKT----TLTLQVIAEAQKKGKT--CAFVDAEHALDP-----IYASKLGVN------ 109
Cdd:cd19493 1 DTALA-GGLPLGAITEITGASGSGKTqfalTLASSAAMPARKGGLDggVLYIDTESKFSAerlaeIAEARFPEAfsgfme 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 110 --------IDELLVSQPDTGEQALEICDML---VRSGGVDVVIVDSVAALTPKAeiegdMGDSHVGLQARlmSQALRKLT 178
Cdd:cd19493 80 eneraeemLKRVAVVRVTTLAQLLERLPNLeehILSSGVRLVVIDSIAALVRRE-----FGGSDGEVTER--HNALAREA 152
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*.
gi 1552476847 179 GNIKR-SNTLCIFI---NQIRMKIGVMFGSPETTTG--GNALKFYSSVRLDIRRIG 228
Cdd:cd19493 153 SSLKRlAEEFRIAVlvtNQATTHFGDAGDGSSGVTAalGDAWAHAVNTRLRLERCL 208
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
58-227 |
4.16e-09 |
|
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Pssm-ID: 214640 [Multi-domain] Cd Length: 148 Bit Score: 54.69 E-value: 4.16e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 58 GRVVEIYGPEASGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYASKLGVNIDELLVSqpDTGEQALEICDMLVRSGGV 137
Cdd:smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS--GSGELRLRLALALARKLKP 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 138 DVVIVDSVAALTPKaeiegdmgdshVGLQARLMSQALRKLTGNIKRSNTLCIFINQirmkigvmfgsPETTTGGNALKFY 217
Cdd:smart00382 80 DVLILDEITSLLDA-----------EQEALLLLLEELRLLLLLKSEKNLTVILTTN-----------DEKDLGPALLRRR 137
|
170
....*....|
gi 1552476847 218 SSVRLDIRRI 227
Cdd:smart00382 138 FDRRIVLLLI 147
|
|
| XRCC3 |
cd19491 |
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ... |
46-221 |
1.21e-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: 1.21e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 46 IDIALGiGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQ------KKGKTCAFVDAEHAL----------------DPIYA 103
Cdd:cd19491 1 LDELLG-GGIPVGGITEIAGESGAGKTQLCLQLALTVQlprelgGLGGGAVYICTESSFpskrlqqlasslpkryHLEKA 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 104 SKLGVNIdeLLVSQPDTgeQALEICDM-----LVRSGGVDVVIVDSVAALtpkAEIEGDMGDSHVGLQARLMSQALRKLT 178
Cdd:cd19491 80 KNFLDNI--FVEHVADL--ETLEHCLNyqlpaLLERGPIRLVVIDSIAAL---FRSEFDTSRSDLVERAKYLRRLADHLK 152
|
170 180 190 200
....*....|....*....|....*....|....*....|...
gi 1552476847 179 GNIKRSNTLCIFINQIRMKIGVMFGSPETTTGGNALKFYSSVR 221
Cdd:cd19491 153 RLADKYNLAVVVVNQVTDRFDSSSDASGLGVLDYLSQFSSFSG 195
|
|
| KaiC-like |
cd01124 |
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ... |
39-206 |
1.29e-08 |
|
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: 54.58 E-value: 1.29e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 39 ISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIY--ASKLGVNIDEL--- 113
Cdd:cd01124 1 VKTGIPGLDELLG-GGIPKGSVTLLTGGPGTGKTLFGLQFLYAGAKNGEPGLFFTFEESPERLLrnAKSFGWDFDEMede 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 114 ----LVSQPDTGEQALEICDML------VRSGGVDVVIVDSVAALTPKAEiegdmgdshvglQARLMSQALRKLTGNIKR 183
Cdd:cd01124 80 gkliIVDAPPTEAGRFSLDELLsrilsiIKSFKAKRVVIDSLSGLRRAKE------------DQMRARRIVIALLNELRA 147
|
170 180
....*....|....*....|....*.
gi 1552476847 184 SNTLCIFINQ---IRMKIGVMFGSPE 206
Cdd:cd01124 148 AGVTTIFTSEmrsFLSSESAGGGDVS 173
|
|
| Rad51 |
pfam08423 |
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ... |
39-226 |
1.53e-08 |
|
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: 54.62 E-value: 1.53e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 39 ISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTL--TLQVIAEAQK-----KGKtCAFVDAEHALDPI----YASKLG 107
Cdd:pfam08423 19 ITTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLchTLCVTCQLPLemgggEGK-ALYIDTEGTFRPErlvaIAERYG 96
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 108 VNIDELLVSQP-------DTGEQALEICDMLVRSGGVDVVIVDSVAALTpKAEIEGdMGDshvgLQARLM--SQALRKLT 178
Cdd:pfam08423 97 LDPEDVLDNVAyaraynsEHQMQLLQQAAAMMSESRFALLIVDSATALY-RTDFSG-RGE----LAERQQhlAKFLRTLQ 170
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 1552476847 179 gNIKRSNTLCIFI-NQIRMKIG---VMF-GSPETTTGGNALKFYSSVRLDIRR 226
Cdd:pfam08423 171 -RLADEFGVAVVItNQVVAQVDgaaGMFsGDPKKPIGGHIMAHASTTRLSLRK 222
|
|
| radA |
PRK04301 |
DNA repair and recombination protein RadA; Validated |
31-226 |
2.21e-08 |
|
DNA repair and recombination protein RadA; Validated
Pssm-ID: 235273 [Multi-domain] Cd Length: 317 Bit Score: 54.88 E-value: 2.21e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 31 NQAMDIEAISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQK------KGKTCAFVDAE--------- 95
Cdd:PRK04301 76 ERRKNVGKITTGSKELDELLG-GGIETQSITEFYGEFGSGKTQICHQLAVNVQLpeekggLEGKAVYIDTEgtfrperie 154
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 96 -----------HALDPIYASKlGVNIDE--LLVsqpdtgEQALEICDmlvRSGGVDVVIVDSVAALTpKAEiegdmgdsH 162
Cdd:PRK04301 155 qmaealgldpdEVLDNIHVAR-AYNSDHqmLLA------EKAEELIK---EGENIKLVIVDSLTAHF-RAE--------Y 215
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1552476847 163 VGL------QARLMSQ--ALRKLtGNIkrSNTLCIFINQIRMKIGVMFGSPETTTGGNALKFYSSVRLDIRR 226
Cdd:PRK04301 216 VGRgnlaerQQKLNKHlhDLLRL-ADL--YNAAVVVTNQVMARPDAFFGDPTQPIGGHILGHTATFRIYLRK 284
|
|
| Rad51_DMC1_archRadA |
cd01123 |
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ... |
39-226 |
3.43e-08 |
|
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: 53.69 E-value: 3.43e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 39 ISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTL--TLQV-----IAEAQKKGKtCAFVDAEHALDPI----YASKLG 107
Cdd:cd01123 1 ITTGSKELDKLLG-GGIETGSITEMFGEFRTGKTQLchTLAVtcqlpIDRGGGEGK-AIYIDTEGTFRPErlraIAQRFG 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 108 VNIDELL----VSQPDTGEQALEICD----MLVRSgGVDVVIVDSVAALTpKAEIEGdMGDshvgLQARLM--SQALRKL 177
Cdd:cd01123 79 LDPDDVLdnvaYARAFNSDHQTQLLDqaaaMMVES-RFKLLIVDSATALY-RTDYSG-RGE----LSARQMhlAKFLRML 151
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|..
gi 1552476847 178 TGNIKRSNTLCIFINQIRMKIG---VMFGSPETTTGGNALKFYSSVRLDIRR 226
Cdd:cd01123 152 QRLADEFGVAVVVTNQVVAQVDgamMFAADPKKPIGGNILAHASTTRLYLRK 203
|
|
| ATPase |
pfam06745 |
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ... |
53-230 |
9.12e-08 |
|
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and eukaryotes. More than one copy is sometimes found in each protein. This family includes KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria.
Pssm-ID: 429095 [Multi-domain] Cd Length: 231 Bit Score: 52.25 E-value: 9.12e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 53 GGLPCGRVVEIYGPEASGKTTLTLQVIAE-AQKKGKTCAFVDA-EHALDPIY-ASKLGVNIDEL----------LVSQPD 119
Cdd:pfam06745 14 GGFPEGRVVLITGGPGTGKTIFGLQFLYNgALKYGEPGVFVTLeEPPEDLREnARSFGWDLEKLeeegklaiidASTSGI 93
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 120 TGEQALEICDM---------LVRSGGVDVVIVDSVAALtpkAEIEGDMgdshvglQARlmsQALRKLTGNIKRSNTLCIF 190
Cdd:pfam06745 94 GIAEVEDRFDLeelierlreAIREIGAKRVVIDSITTL---FYLLKPA-------VAR---EILRRLKRVLKGLGVTAIF 160
|
170 180 190 200
....*....|....*....|....*....|....*....|...
gi 1552476847 191 INQIRMKigvmfgspETTTGGNALKFYSS---VRLDIRRIGAV 230
Cdd:pfam06745 161 TSEKPSG--------EGGIGGYGVEEFIVdgvIRLDLKEIEEE 195
|
|
| PLN03186 |
PLN03186 |
DNA repair protein RAD51 homolog; Provisional |
32-261 |
8.54e-07 |
|
DNA repair protein RAD51 homolog; Provisional
Pssm-ID: 178728 [Multi-domain] Cd Length: 342 Bit Score: 50.12 E-value: 8.54e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 32 QAMDIEAISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTL--TLQV-----IAEAQKKGKtCAFVDAEHALDP---- 100
Cdd:PLN03186 98 QRQEIIQITTGSRELDKILE-GGIETGSITEIYGEFRTGKTQLchTLCVtcqlpLDQGGGEGK-AMYIDTEGTFRPqrli 175
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 101 IYASKLGVNIDELL-----VSQPDTGEQA---LEICDMLVRSgGVDVVIVDSVAALTpKAEIEGdMGDshvgLQAR--LM 170
Cdd:PLN03186 176 QIAERFGLNGADVLenvayARAYNTDHQSellLEAASMMAET-RFALMIVDSATALY-RTEFSG-RGE----LSARqmHL 248
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 171 SQALRKLTGNIKRSNTLCIFINQIRMKI--GVMFGSPETT-TGGNALKFYSSVRLdirrigAVKEGDevvGNETRVKVVK 247
Cdd:PLN03186 249 GKFLRSLQRLADEFGVAVVITNQVVAQVdgSAFFAGPQLKpIGGNIMAHASTTRL------ALRKGR---GENRICKVIS 319
|
250
....*....|....
gi 1552476847 248 NKVAPPfKQAEFMI 261
Cdd:PLN03186 320 SPCLPE-AEARFSI 332
|
|
| archRadA |
cd19515 |
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ... |
39-226 |
9.13e-07 |
|
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: 49.28 E-value: 9.13e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 39 ISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQKK------GKTCAFVDAEHALDP----IYASKLGV 108
Cdd:cd19515 1 ISTGSKELDKLLG-GGIETQAITEVFGEFGSGKTQLCHQLAVNVQLPpeegglNGKAVYIDTENTFRPerimQMAKALGL 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 109 NIDELL----VSQP-DTGEQAL---EICDMLVRSGGVDVVIVDSVAALTpKAEIEGdmgdsHVGLQARlmSQALRKLTGN 180
Cdd:cd19515 80 DPDEVLdniyVARAyNSNHQMLlveKAEDLIKEGNNIKLLIVDSLTSHF-RAEYVG-----RGTLAER--QQKLNKHLHD 151
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|
gi 1552476847 181 IKRSNTL---CIFI-NQIRMKIGVMFGSPETTTGGNALKFYSSVRLDIRR 226
Cdd:cd19515 152 LHRLADLyniAVLVtNQVMAKPDAFFGDPTQAIGGHILGHAATFRVYLRK 201
|
|
| KaiC-like_N |
cd19488 |
N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ... |
39-150 |
1.37e-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: 48.50 E-value: 1.37e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 39 ISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYASKL-------GVNID 111
Cdd:cd19488 1 ISTGIPGLDDILR-GGLPPRRLYLVEGAPGTGKTTLALQFLLEGAANGETGLYITLSETEQELRAVALshgwsldGIHIF 79
|
90 100 110 120
....*....|....*....|....*....|....*....|...
gi 1552476847 112 ELlvSQPDTGEQALEICDML----VRSGGVDVVIVDSVAALTP 150
Cdd:cd19488 80 EL--SPSESALDAAQQYTILhpseLELSETTRLIFERVERLKP 120
|
|
| RadA_SMS_N |
cd01121 |
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ... |
26-145 |
1.38e-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: 1.38e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 26 MRLGDNQAMDIEAISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPI--YA 103
Cdd:cd01121 51 LPLSDVEAEEEERISTGIGELDRVLG-GGLVPGSVVLIGGDPGIGKSTLLLQVAARLAQRGGKVLYVSGEESLSQIklRA 129
|
90 100 110 120
....*....|....*....|....*....|....*....|...
gi 1552476847 104 SKLGVNIDELLVsqpdTGEQALE-ICDMLVRSgGVDVVIVDSV 145
Cdd:cd01121 130 ERLGLGSDNLYL----LAETNLEaILAEIEEL-KPSLVVIDSI 167
|
|
| Rad51 |
cd19513 |
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ... |
39-226 |
6.59e-06 |
|
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51 is recruited to the break site with the help of its paralogs, RAD51D, RAD51B, RAD51C, XRCC3, and XRCC2, where it forms long helical polymers which wrap around the ssDNA tail at the break which leads to pairing and strand invasion.
Pssm-ID: 410921 [Multi-domain] Cd Length: 235 Bit Score: 46.54 E-value: 6.59e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 39 ISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTL--TLQV-----IAEAQKKGKtCAFVDAEHALDP----IYASKLG 107
Cdd:cd19513 1 ITTGSKELDKLLG-GGIETGSITELFGEFRTGKTQLchTLAVtcqlpIDQGGGEGK-ALYIDTEGTFRPerllAIAERYG 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 108 VNIDELL--VSQP---DTGEQA---LEICDMLVRSgGVDVVIVDSVAALTpKAEIEGdMGDshvgLQARLM--SQALRKL 177
Cdd:cd19513 79 LNGEDVLdnVAYArayNTDHQMqllIQASAMMAES-RYALLIVDSATALY-RTDYSG-RGE----LSARQMhlAKFLRML 151
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|..
gi 1552476847 178 TGNIKRSNTLCIFINQIRMKI--GVMF-GSPETTTGGNALKFYSSVRLDIRR 226
Cdd:cd19513 152 QRLADEFGVAVVITNQVVAQVdgAAMFaGDPKKPIGGNIMAHASTTRLYLRK 203
|
|
| Rad51D |
cd19489 |
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
53-177 |
1.55e-05 |
|
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51D, together with the other RAD51 paralogs, RAD51B, RAD51C, XRCC3, and XRCC2, helps recruit RAD51 to the break site.
Pssm-ID: 410897 [Multi-domain] Cd Length: 209 Bit Score: 45.32 E-value: 1.55e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 53 GGLPCGRVVEIYGPEASGKTTLTLQVIAE-AQKKGKTCAFVDAEHALdpiYASKLGvnidELLVSQPDTGEQALEICD-- 129
Cdd:cd19489 2 GGLRTGEITELVGESSSGKTQLCLTAAANvASRSGQNVLYIDTKSSF---SARRLA----QILKSRAQDAEEIDKALQri 74
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1552476847 130 ------------MLVR-------------SGGVDVVIVDSVAAL-TPkaeIEGdmGDSHVGLQARLMSQA--LRKL 177
Cdd:cd19489 75 rvvrvfdpyellDLLEelrntlsqqqenlYSRLKLVIIDSLSALiSP---LLG--GSKHSEGHALLASLArlLKKL 145
|
|
| PLN03187 |
PLN03187 |
meiotic recombination protein DMC1 homolog; Provisional |
35-258 |
3.07e-05 |
|
meiotic recombination protein DMC1 homolog; Provisional
Pssm-ID: 215620 [Multi-domain] Cd Length: 344 Bit Score: 45.15 E-value: 3.07e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 35 DIEAISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTL--TLQVIAE-AQKKGKTC---AFVDAEHALDP----IYAS 104
Cdd:PLN03187 104 SVVRITTGSQALDELLG-GGIETRCITEAFGEFRSGKTQLahTLCVTTQlPTEMGGGNgkvAYIDTEGTFRPdrivPIAE 182
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 105 KLGVN----IDELLVSQPDTGEQALeicDMLVRSGG------VDVVIVDSVAAL-----TPKAEIEGDmgdshvglQARL 169
Cdd:PLN03187 183 RFGMDadavLDNIIYARAYTYEHQY---NLLLGLAAkmaeepFRLLIVDSVIALfrvdfTGRGELAER--------QQKL 251
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 170 mSQALRKLTGNIKRSNTLCIFINQIRMKIG--VMFGSPETTTGGNALKFYSSVRLDIRRigavKEGDEVVgnetrVKVVK 247
Cdd:PLN03187 252 -AQMLSRLTKIAEEFNVAVYMTNQVIADPGggMFISDPKKPAGGHVLAHAATIRLMLRK----GKGEQRV-----CKVFD 321
|
250
....*....|.
gi 1552476847 248 nkvAPPFKQAE 258
Cdd:PLN03187 322 ---APNLPEAE 329
|
|
| PRK06067 |
PRK06067 |
flagellar accessory protein FlaH; Validated |
35-155 |
2.04e-04 |
|
flagellar accessory protein FlaH; Validated
Pssm-ID: 180381 Cd Length: 234 Bit Score: 42.27 E-value: 2.04e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 35 DIEAISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQKKGKTCAFVDAEHA----LDPIYASKLGV-- 108
Cdd:PRK06067 3 KKEIISTGNEELDRKLG-GGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENTsksyLKQMESVKIDIsd 81
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*...
gi 1552476847 109 -------NIDELLVSQ----PDTGEQALEICDMLVRSGGVDVVIVDSVAALTPKAEIE 155
Cdd:PRK06067 82 fflwgylRIFPLNTEGfewnSTLANKLLELIIEFIKSKREDVIIIDSLTIFATYAEED 139
|
|
| FlaH |
COG2874 |
Archaellum biogenesis ATPase ArlH/FlaH [Cell motility]; |
39-149 |
2.99e-04 |
|
Archaellum biogenesis ATPase ArlH/FlaH [Cell motility];
Pssm-ID: 442121 Cd Length: 230 Bit Score: 41.74 E-value: 2.99e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 39 ISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQKKGKTCAFVDAEHA----LDPIYASKLGVN---ID 111
Cdd:COG2874 3 ISTGNDELDKRLG-GGIPLGSLVLIEGENGTGKSVLSQQFAYGALENGLSVTYISTELTtkefIKQMKSLSYDISdylLR 81
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|
gi 1552476847 112 ELLV---SQPDTGE----QALEICDMLVR-----SGGVDVVIVDSVAALT 149
Cdd:COG2874 82 GRLLflpVHPLGFEwnskQRKDLLKRLMKyiasnLWEADVIIIDSLSALL 131
|
|
| recomb_DMC1 |
TIGR02238 |
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ... |
39-226 |
3.28e-04 |
|
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: 42.07 E-value: 3.28e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 39 ISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTL--TLQVIAEAQKKGK----TCAFVDAEHALDP----IYASKLGV 108
Cdd:TIGR02238 78 ITTGSQALDGILG-GGIESMSITEVFGEFRCGKTQLshTLCVTAQLPREMGggngKVAYIDTEGTFRPdrirAIAERFGV 156
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 109 N----IDELLVSQPDTGEQALEICDML---VRSGGVDVVIVDSVAALtpkaeIEGDM-GDSHVGLQARLMSQALRKLTGN 180
Cdd:TIGR02238 157 DpdavLDNILYARAYTSEHQMELLDYLaakFSEEPFRLLIVDSIMAL-----FRVDFsGRGELSERQQKLAQMLSRLNKI 231
|
170 180 190 200
....*....|....*....|....*....|....*....|....*....
gi 1552476847 181 IKRSNTLCIFINQIRMKIG--VMFGS-PETTTGGNALKFYSSVRLDIRR 226
Cdd:TIGR02238 232 SEEFNVAVFVTNQVQADPGatMTFIAdPKKPIGGHVLAHASTTRILLRK 280
|
|
| RepA |
COG3598 |
RecA-family ATPase [Replication, recombination and repair]; |
55-254 |
7.10e-04 |
|
RecA-family ATPase [Replication, recombination and repair];
Pssm-ID: 442817 [Multi-domain] Cd Length: 313 Bit Score: 41.04 E-value: 7.10e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 55 LPCGRVVEIYGPEASGKTTLTLQV---IAEAQK------KGKTCAFVDAEHALDPI------YASKLGVNIDEL------ 113
Cdd:COG3598 10 LPEGGVTLLAGPPGTGKSFLALQLaaaVAAGGPwlgrrvPPGKVLYLAAEDDRGELrrrlkaLGADLGLPFADLdgrlrl 89
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 114 --LVSQPDTGEQALEICDmLVRSGGVDVVIVDSVAALtpkaeIEGDMGDSHvglQARLMSQALRKLtgnIKRSNTLCIFI 191
Cdd:COG3598 90 lsLAGDLDDTDDLEALER-AIEEEGPDLVVIDPLARV-----FGGDENDAE---EMRAFLNPLDRL---AERTGAAVLLV 157
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1552476847 192 NQIRmKIGVMFGSPETTTGGNALKFYSSVRLDIRRigaVKEGDEVVgnetrVKVVKNKVAPPF 254
Cdd:COG3598 158 HHTG-KGGAGKDSGDRARGSSALRGAARSVLVLSR---EKGEDLRV-----LTRAKSNYGPEI 211
|
|
| XRCC2 |
cd19490 |
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ... |
58-80 |
1.02e-03 |
|
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells 2) recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. XRCC2, together with the other RAD51 paralogs, RAD51B, RAD51C, RAD51D, and XRCC3, helps recruit RAD51 to the break site.
Pssm-ID: 410898 [Multi-domain] Cd Length: 226 Bit Score: 40.02 E-value: 1.02e-03
|
| recomb_RAD51 |
TIGR02239 |
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ... |
35-226 |
1.07e-03 |
|
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: 40.48 E-value: 1.07e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 35 DIEAISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTL--TLQV-----IAEAQKKGKtCAFVDAEHALDPI----YA 103
Cdd:TIGR02239 74 EVIQLTTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLchTLAVtcqlpIDQGGGEGK-ALYIDTEGTFRPErllaIA 151
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 104 SKLGVNIDELL--VS-----QPDTGEQALEICDMLVRSGGVDVVIVDSVAALTpKAEIEGdMGDshvgLQARLMSQA--L 174
Cdd:TIGR02239 152 ERYGLNPEDVLdnVAyarayNTDHQLQLLQQAAAMMSESRFALLIVDSATALY-RTDFSG-RGE----LSARQMHLArfL 225
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*.
gi 1552476847 175 RKLTGNIKRSNTLCIFINQIRMKI---GVMF-GSPETTTGGNALKFYSSVRLDIRR 226
Cdd:TIGR02239 226 RSLQRLADEFGVAVVITNQVVAQVdgaGSMFaGDPKKPIGGNIMAHASTTRLSLRK 281
|
|
| PTZ00035 |
PTZ00035 |
Rad51 protein; Provisional |
39-226 |
1.52e-03 |
|
Rad51 protein; Provisional
Pssm-ID: 185407 [Multi-domain] Cd Length: 337 Bit Score: 39.98 E-value: 1.52e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 39 ISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTL--TLQVIAE-----AQKKGKtCAFVDAEHALDP-----IyASKL 106
Cdd:PTZ00035 100 ITTGSTQLDKLLG-GGIETGSITELFGEFRTGKTQLchTLCVTCQlpieqGGGEGK-VLYIDTEGTFRPerivqI-AERF 176
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 107 GVNIDELL----VSQPDTGEQALE----ICDMLVRSGGVdVVIVDSVAALTpKAEIEGdMGDshvgLQARlmSQALRKLT 178
Cdd:PTZ00035 177 GLDPEDVLdniaYARAYNHEHQMQllsqAAAKMAEERFA-LLIVDSATALF-RVDYSG-RGE----LAER--QQHLGKFL 247
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*
gi 1552476847 179 GNIKR----SNTLCIFINQIRMKIG---VMFGSPETTTGGNALKFYSSVRLDIRR 226
Cdd:PTZ00035 248 RALQKladeFNVAVVITNQVMADVDgasMFVADPKKPIGGHIIAHASTTRLSLRK 302
|
|
| KaiC-like_C |
cd19487 |
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ... |
39-146 |
2.11e-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: 38.82 E-value: 2.11e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 39 ISTGSLTIDIALGiGGLPCGRVVEIYGPEASGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPIYASKLGVNID------- 111
Cdd:cd19487 1 VSSGVPELDELLG-GGLERGTSTLLIGPAGVGKSTLALQFAKAAAARGERSVLFSFDESIGTLFERSEALGIDlramvek 79
|
90 100 110 120
....*....|....*....|....*....|....*....|
gi 1552476847 112 -ELLVSQPDTGEQALEICDMLVRSG----GVDVVIVDSVA 146
Cdd:cd19487 80 gLLSIEQIDPAELSPGEFAQRVRTSveqeDARVVVIDSLN 119
|
|
| Rad51C |
cd19492 |
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
58-199 |
3.43e-03 |
|
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: 37.97 E-value: 3.43e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 58 GRVVEIYGPEASGKTTLTLQVIAEAQK-------KGKtCAFVDAEHaldpiyasklGVNIdeLLVSQPDTGEQaLEICDM 130
Cdd:cd19492 1 GKITEICGVPGVGKTQLCMQLAVNVQIpkcfgglAGE-AIYIDTEG----------SFNI--HYFRVHDYVEL-LALINS 66
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1552476847 131 L---VRSG-GVDVVIVDSVaALTPKAEIEgDMgdshvGLQARLMSQALRKLTgNIKRSNTLCIFI-NQIRMKIG 199
Cdd:cd19492 67 LpkfLEDHpKVKLIVVDSI-AFPFRHDFD-DL-----AQRTRLLNGLAQLLH-SLARQHNLAVVLtNQVTTKIS 132
|
|
| Tdk |
COG1435 |
Thymidine kinase [Nucleotide transport and metabolism]; Thymidine kinase is part of the ... |
63-143 |
4.91e-03 |
|
Thymidine kinase [Nucleotide transport and metabolism]; Thymidine kinase is part of the Pathway/BioSystem: Pyrimidine salvage
Pssm-ID: 441044 Cd Length: 192 Bit Score: 37.77 E-value: 4.91e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 63 IYGPEASGKTTLTLQVI--AEAQKKgKTCAFVdaeHALDPIY-----ASKLGVNIDELLVSQPDtgeqalEICDMLVRSG 135
Cdd:COG1435 9 IYGPMFSGKSEELLRRAhnYEEAGQ-KVLLFK---PAIDDRYgegkiVSRIGLSREAIPVDDDT------DILELVREGP 78
|
....*...
gi 1552476847 136 GVDVVIVD 143
Cdd:COG1435 79 DVDVVLID 86
|
|
| PRK10851 |
PRK10851 |
sulfate/thiosulfate ABC transporter ATP-binding protein CysA; |
9-89 |
5.15e-03 |
|
sulfate/thiosulfate ABC transporter ATP-binding protein CysA;
Pssm-ID: 182778 [Multi-domain] Cd Length: 353 Bit Score: 38.53 E-value: 5.15e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 9 LSAALGQIEKQFGKGAIMRlgdnqamdieaistgsltiDIALGIgglPCGRVVEIYGPEASGKTTLtLQVIA--EAQKKG 86
Cdd:PRK10851 1 MSIEIANIKKSFGRTQVLN-------------------DISLDI---PSGQMVALLGPSGSGKTTL-LRIIAglEHQTSG 57
|
...
gi 1552476847 87 KTC 89
Cdd:PRK10851 58 HIR 60
|
|
| AAA_22 |
pfam13401 |
AAA domain; |
59-152 |
5.24e-03 |
|
AAA domain;
Pssm-ID: 379165 [Multi-domain] Cd Length: 129 Bit Score: 36.55 E-value: 5.24e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1552476847 59 RVVEIYGPEASGKTTLTLQVIAEAQKKGKTCAFVDAEHALDPI-YASKLGVNIDELLVSQPDTGEQALEICDMLVRSGGV 137
Cdd:pfam13401 6 GILVLTGESGTGKTTLLRRLLEQLPEVRDSVVFVDLPSGTSPKdLLRALLRALGLPLSGRLSKEELLAALQQLLLALAVA 85
|
90
....*....|....*
gi 1552476847 138 DVVIVDSVAALTPKA 152
Cdd:pfam13401 86 VVLIIDEAQHLSLEA 100
|
|
| |
