|
Name |
Accession |
Description |
Interval |
E-value |
| recA |
PRK09354 |
recombinase A; Provisional |
1-348 |
0e+00 |
|
recombinase A; Provisional
Pssm-ID: 236476 [Multi-domain] Cd Length: 349 Bit Score: 671.12 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 1 MSDDKSKALAAALAQIEKSFGKGAIMKMdGSQQEENLEVISTGSLGLDLALGVGGLPRGRIVEIFGPESSGKTTLCLEAV 80
Cdd:PRK09354 3 MDEEKQKALEAALKQIEKQFGKGSIMRL-GDDAAMDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAI 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 81 AQCQKNGGVCAFVDAEHAFDPVYARKLGVKVEELYLSQPDTGEQALEICDTLVRSGGIDMVVVDSVAALVPKAEIEGDMG 160
Cdd:PRK09354 82 AEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEMG 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 161 DSHVGLQARLMSQALRKLTGHIKKTNTLVVFINQIRMKIGVMFGSPETTTGGNALKFYSSVRLDIRRTGSIKKGEEVLGN 240
Cdd:PRK09354 162 DSHVGLQARLMSQALRKLTGNISKSNTTVIFINQIREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDGDEVIGN 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 241 ETRVKVIKNKVAPPFRQAEFDILYGEGISWEGELIDIGVKNDIINKSGAWYSYNGAKIGQGKDNVRVWLKENPEVANEID 320
Cdd:PRK09354 242 RTKVKVVKNKVAPPFKQAEFDIMYGEGISREGELIDLGVELGIIEKSGAWYSYNGEKIGQGRENAKQYLKENPELADEIE 321
|
330 340
....*....|....*....|....*...
gi 488141805 321 AKIRALNGVEMHITEGTQDETDGERPEE 348
Cdd:PRK09354 322 KKIREKLGLSAAAAEEEEEEDEEEEEEE 349
|
|
| RecA |
COG0468 |
RecA/RadA recombinase [Replication, recombination and repair]; |
1-347 |
0e+00 |
|
RecA/RadA recombinase [Replication, recombination and repair];
Pssm-ID: 440236 [Multi-domain] Cd Length: 351 Bit Score: 658.78 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 1 MSDDKSKALAAALAQIEKSFGKGAIMKMdGSQQEENLEVISTGSLGLDLALGVGGLPRGRIVEIFGPESSGKTTLCLEAV 80
Cdd:COG0468 6 ASSEKEKALEAALSQIEKQFGKGSIMRL-GDKARQDVEVISTGSLALDIALGVGGLPRGRIVEIYGPESSGKTTLALHAI 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 81 AQCQKNGGVCAFVDAEHAFDPVYARKLGVKVEELYLSQPDTGEQALEICDTLVRSGGIDMVVVDSVAALVPKAEIEGDMG 160
Cdd:COG0468 85 AEAQKAGGIAAFIDAEHALDPEYAKKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDLIVVDSVAALVPKAEIEGEMG 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 161 DSHVGLQARLMSQALRKLTGHIKKTNTLVVFINQIRMKIGVMFGSPETTTGGNALKFYSSVRLDIRRTGSIKKGEEVLGN 240
Cdd:COG0468 165 DSHVGLQARLMSQALRKLTGAISKSNTTVIFINQLREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTIKDGDEVIGN 244
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 241 ETRVKVIKNKVAPPFRQAEFDILYGEGISWEGELIDIGVKNDIINKSGAWYSYNGAKIGQGKDNVRVWLKENPEVANEID 320
Cdd:COG0468 245 RTRVKVVKNKVAPPFKEAEFDIMYGEGISKEGELLDLAVELGIIEKSGAWYSYGGERLGQGRENAKQFLKENPELAEEIE 324
|
330 340
....*....|....*....|....*..
gi 488141805 321 AKIRALNGVEMHITEGTQDETDGERPE 347
Cdd:COG0468 325 AKIREKLGLGAVSEAAAAEEEEDEEEE 351
|
|
| tigrfam_recA |
TIGR02012 |
protein RecA; This model describes orthologs of the recA protein. RecA promotes hybridization ... |
4-325 |
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: 599.36 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 4 DKSKALAAALAQIEKSFGKGAIMKMdGSQQEENLEVISTGSLGLDLALGVGGLPRGRIVEIFGPESSGKTTLCLEAVAQC 83
Cdd:TIGR02012 1 DKQKALEAALAQIEKQFGKGSIMRL-GEKTVMDVETISTGSLALDLALGVGGLPKGRIIEIYGPESSGKTTLALHAIAEA 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 84 QKNGGVCAFVDAEHAFDPVYARKLGVKVEELYLSQPDTGEQALEICDTLVRSGGIDMVVVDSVAALVPKAEIEGDMGDSH 163
Cdd:TIGR02012 80 QKAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDIIVVDSVAALVPKAEIEGEMGDSH 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 164 VGLQARLMSQALRKLTGHIKKTNTLVVFINQIRMKIGVMFGSPETTTGGNALKFYSSVRLDIRRTGSIKKGEEVLGNETR 243
Cdd:TIGR02012 160 VGLQARLMSQALRKLTGALSKSNTTAIFINQIREKIGVMFGNPETTTGGNALKFYASVRLDIRRIGTVKQGEEVVGNRTK 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 244 VKVIKNKVAPPFRQAEFDILYGEGISWEGELIDIGVKNDIINKSGAWYSYNGAKIGQGKDNVRVWLKENPEVANEIDAKI 323
Cdd:TIGR02012 240 VKVVKNKVAPPFREAEFDILYGEGISKLGEIIDLAVELDIIKKSGSWYSYGDEKLGQGRENAKAFLKENPELAQEIEKKV 319
|
..
gi 488141805 324 RA 325
Cdd:TIGR02012 320 RE 321
|
|
| RecA |
pfam00154 |
recA bacterial DNA recombination protein; RecA is a DNA-dependent ATPase and functions in DNA ... |
15-269 |
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: 510.02 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 15 QIEKSFGKGAIMKMdGSQQEENLEVISTGSLGLDLALGVGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQKNGGVCAFVD 94
Cdd:pfam00154 9 QIEKQFGKGSIMKL-GDEKKLDVETISTGSLALDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFID 87
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 95 AEHAFDPVYARKLGVKVEELYLSQPDTGEQALEICDTLVRSGGIDMVVVDSVAALVPKAEIEGDMGDSHVGLQARLMSQA 174
Cdd:pfam00154 88 AEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADMLVRSGAIDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQA 167
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 175 LRKLTGHIKKTNTLVVFINQIRMKIGVMFGSPETTTGGNALKFYSSVRLDIRRTGSIKKGEEVLGNETRVKVIKNKVAPP 254
Cdd:pfam00154 168 LRKLTGSISKSNTTVIFINQIREKIGVMFGNPETTTGGRALKFYASVRLDIRRIGQIKQGEEVIGNKTKVKVVKNKVAPP 247
|
250
....*....|....*
gi 488141805 255 FRQAEFDILYGEGIS 269
Cdd:pfam00154 248 FKEAEFDIMYGEGIS 262
|
|
| RecA |
cd00983 |
recombinase A; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
36-269 |
3.45e-170 |
|
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: 472.81 E-value: 3.45e-170
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 36 NLEVISTGSLGLDLALGVGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQKNGGVCAFVDAEHAFDPVYARKLGVKVEELY 115
Cdd:cd00983 1 DVEVIPTGSLSLDIALGIGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKLGGTAAFIDAEHALDPEYAKKLGVDIDNLL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 116 LSQPDTGEQALEICDTLVRSGGIDMVVVDSVAALVPKAEIEGDMGDSHVGLQARLMSQALRKLTGHIKKTNTLVVFINQI 195
Cdd:cd00983 81 VSQPDTGEQALEIADTLIRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSLSKSKTTVIFINQL 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488141805 196 RMKIGVMFGSPETTTGGNALKFYSSVRLDIRRTGSIKKGEEVLGNETRVKVIKNKVAPPFRQAEFDILYGEGIS 269
Cdd:cd00983 161 REKIGVMFGNPETTTGGNALKFYASVRLDIRRIELIKEGEDVIGNRTKVKVVKNKVAPPFKQAEFDILYGEGIS 234
|
|
| recA |
PRK09519 |
intein-containing recombinase RecA; |
4-250 |
1.29e-113 |
|
intein-containing recombinase RecA;
Pssm-ID: 77219 [Multi-domain] Cd Length: 790 Bit Score: 347.85 E-value: 1.29e-113
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 4 DKSKALAAALAQIEKSFGKGAIMKMdGSQQEENLEVISTGSLGLDLALGVGGLPRGRIVEIFGPESSGKTTLCLEAVAQC 83
Cdd:PRK09519 6 DREKALELAVAQIEKSYGKGSVMRL-GDEARQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANA 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 84 QKNGGVCAFVDAEHAFDPVYARKLGVKVEELYLSQPDTGEQALEICDTLVRSGGIDMVVVDSVAALVPKAEIEGDMGDSH 163
Cdd:PRK09519 85 QAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGALDIVVIDSVAALVPRAELEGEMGDSH 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 164 VGLQARLMSQALRKLTGHIKKTNTLVVFINQIRMKIGVMFGSPETTTGGNALKFYSSVRLDIRRTGSIKKGEEVLGNETR 243
Cdd:PRK09519 165 VGLQARLMSQALRKMTGALNNSGTTAIFINQLRDKIGVMFGSPETTTGGKALKFYASVRMDVRRVETLKDGTNAVGNRTR 244
|
....*..
gi 488141805 244 VKVIKNK 250
Cdd:PRK09519 245 VKVVKNK 251
|
|
| RecA-like |
cd01393 |
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
59-227 |
2.32e-56 |
|
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: 181.78 E-value: 2.32e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 59 GRIVEIFGPESSGKTTLCLEAVAQCQKNGGVCAFVDAEHAFDPVYAR-----------KLGVKVEELYLSQPDTGEQALE 127
Cdd:cd01393 1 GKITEIYGPPGSGKTQLALQLAANALLLGGGVVWIDTEGAFPPSRLVqileaspsselELAEALSRLLYFRPPDTLAHLL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 128 ICDTLVR----SGGIDMVVVDSVAALVPKAEIEGDMGDSHVGLQARLMSQALRKLTGHIKKTNTLVVFINQIRMKIGVMF 203
Cdd:cd01393 81 ALDSLPEslfpPPNTSLVVVDSVSALFRKAFPRGGDGDSSSSLRARLLSQLARALQKLAAQFNLAVVVTNQVTTKIRGGS 160
|
170 180
....*....|....*....|....*
gi 488141805 204 G-SPETTTGGNALKFYSSVRLDIRR 227
Cdd:cd01393 161 GaSLVPPALGNTWEHSVSTRLLLYR 185
|
|
| recA |
PRK09519 |
intein-containing recombinase RecA; |
218-346 |
2.73e-26 |
|
intein-containing recombinase RecA;
Pssm-ID: 77219 [Multi-domain] Cd Length: 790 Bit Score: 109.80 E-value: 2.73e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 218 YSSVR--LDIRRTGSIKKGEEVLGNETRVKVIKNKVAPPFRQAEFDILYGEGISWEGELIDIGVKNDIINKSGAWYSYNG 295
Cdd:PRK09519 657 YSVIRevLPTRRARTFDLEVEELHTLVAEGVVVHNCSPPFKQAEFDILYGKGISREGSLIDMGVDQGLIRKSGAWFTYEG 736
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|.
gi 488141805 296 AKIGQGKDNVRVWLKENPEVANEIDAKIRALNGVEMHITEGTQDetDGERP 346
Cdd:PRK09519 737 EQLGQGKENARNFLVENADVADEIEKKIKEKLGIGAVVTDDPSN--DGVLP 785
|
|
| archRadB |
cd01394 |
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ... |
40-262 |
4.55e-23 |
|
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: 95.46 E-value: 4.55e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 40 ISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQKNGGVCAFVDAE----HAFDPVYARKLGVKVEELY 115
Cdd:cd01394 1 LSTGSKSLDSLLG-GGVERGTITQIYGPPGSGKTNICLQLAVEAAKQGKKVVYIDTEglspERFQQIAGERFESIASNII 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 116 LSQP-DTGEQALEICDT--LVRSGGIDMVVVDSVAALVpKAEiegDMGDShvGLQARLMSQaLRKLTGHIKKTNTLVVFI 192
Cdd:cd01394 80 VFEPySFDEQGVAIQEAekLLKSDKVDLVVVDSATALY-RLE---LGDDS--EANRELSRQ-MSKLLSIARKYDIPVVIT 152
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 193 NQIRMKIGVMFGSPettTGGNALKFYSSVRLDIRRTGsikkgeevlGNETRVKVIKNKVAPPFRQAEFDI 262
Cdd:cd01394 153 NQVYSDIDDDRLKP---VGGTLLEHWSKAIIRLEKSP---------PGLRRATLEKHRSRPEGQSAGFRI 210
|
|
| radB |
PRK09361 |
DNA repair and recombination protein RadB; Provisional |
38-269 |
4.28e-15 |
|
DNA repair and recombination protein RadB; Provisional
Pssm-ID: 236482 [Multi-domain] Cd Length: 225 Bit Score: 73.36 E-value: 4.28e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 38 EVISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQKNGGVCAFVDAEhAFDPVYARKL-GVKVEEL-- 114
Cdd:PRK09361 3 ERLPTGCKMLDELLG-GGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE-GLSPERFKQIaGEDFEELls 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 115 --YLSQP-DTGEQALEICDT--LVRSgGIDMVVVDSVAALVpKAEIEGDMGDShvGLQARLMSQaLRKLTGHIKKTNTLV 189
Cdd:PRK09361 81 niIIFEPsSFEEQSEAIRKAekLAKE-NVGLIVLDSATSLY-RLELEDEEDNS--KLNRELGRQ-LTHLLKLARKHDLAV 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 190 VFINQIRMKIGVMFGSPettTGGNALKFyssvrldirRTGSIKKGEEVLGNETRVKVIKNKVAPPFRQAEFDILyGEGIS 269
Cdd:PRK09361 156 VITNQVYSDIDSDGLRP---LGGHTLEH---------WSKTILRLEKFRNGKRRATLEKHRSRPEGESAEFRIT-DRGIE 222
|
|
| Rad51 |
pfam08423 |
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ... |
23-236 |
3.40e-14 |
|
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: 71.56 E-value: 3.40e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 23 GAIMKMDGSQQEENLEVISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQ----KNG--GVCAFVDAE 96
Cdd:pfam08423 2 GFTTATELHQRRSELIQITTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLCHTLCVTCQlpleMGGgeGKALYIDTE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 97 HAFDPV----YARKLGVKVEELYLSQP-------DTGEQALEICDTLVRSGGIDMVVVDSVAALVpKAEIEGdMGDshvg 165
Cdd:pfam08423 81 GTFRPErlvaIAERYGLDPEDVLDNVAyaraynsEHQMQLLQQAAAMMSESRFALLIVDSATALY-RTDFSG-RGE---- 154
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 488141805 166 LQARLM--SQALRKLTGHIKKTNTLVVFINQIRMKIG---VMF-GSPETTTGGNALKFYSSVRLDIRRtgsiKKGEE 236
Cdd:pfam08423 155 LAERQQhlAKFLRTLQRLADEFGVAVVITNQVVAQVDgaaGMFsGDPKKPIGGHIMAHASTTRLSLRK----GRGEQ 227
|
|
| recomb_radB |
TIGR02237 |
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ... |
47-227 |
1.04e-13 |
|
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Pssm-ID: 274047 [Multi-domain] Cd Length: 209 Bit Score: 69.37 E-value: 1.04e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 47 LDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQKNGGVCAFVDAE----HAFDPVYARKLGVKVEELYLSQP-DT 121
Cdd:TIGR02237 1 IDELLG-GGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEglspERFKQIAEDRPERALSNFIVFEVfDF 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 122 GEQALEICDT--LVRSGGIDMVVVDSVAALVpKAEIEGDMGDSHVGLQARLmsQALRKLTghiKKTNTLVVFINQIRMKI 199
Cdd:TIGR02237 80 DEQGVAIQKTskFIDRDSASLVVVDSFTALY-RLELSDDRISRNRELARQL--TLLLSLA---RKKNLAVVITNQVYTDV 153
|
170 180
....*....|....*....|....*...
gi 488141805 200 GVMFGSPettTGGNALKFYSSVRLDIRR 227
Cdd:TIGR02237 154 NNGTLRP---LGGHLLEHWSKVILRLEK 178
|
|
| Rad51B |
cd19493 |
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
48-227 |
2.76e-13 |
|
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: 68.12 E-value: 2.76e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 48 DLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQC----QKNG--GVCAFVDAEHAFDPV---------YARKLGVKVE 112
Cdd:cd19493 1 DTALA-GGLPLGAITEITGASGSGKTQFALTLASSAampaRKGGldGGVLYIDTESKFSAErlaeiaearFPEAFSGFME 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 113 E----------LYLSQPDTGEQALEICDTL---VRSGGIDMVVVDSVAALVPKA--EIEGDMGDSHVGLqARLMSqALRK 177
Cdd:cd19493 80 EneraeemlkrVAVVRVTTLAQLLERLPNLeehILSSGVRLVVIDSIAALVRREfgGSDGEVTERHNAL-AREAS-SLKR 157
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|..
gi 488141805 178 LTghiKKTNTLVVFINQIRMKIGVMFGSPETTTG--GNALKFYSSVRLDIRR 227
Cdd:cd19493 158 LA---EEFRIAVLVTNQATTHFGDAGDGSSGVTAalGDAWAHAVNTRLRLER 206
|
|
| Rad51_DMC1_archRadA |
cd01123 |
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ... |
40-268 |
8.28e-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: 67.17 E-value: 8.28e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 40 ISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQ------KNGGVCAFVDAEHAFDPV----YARKLGV 109
Cdd:cd01123 1 ITTGSKELDKLLG-GGIETGSITEMFGEFRTGKTQLCHTLAVTCQlpidrgGGEGKAIYIDTEGTFRPErlraIAQRFGL 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 110 KVEE----LYLSQPDTGEQALEICD---TLVRSGGIDMVVVDSVAALVpKAEIEGdMGDshvgLQARLM--SQALRKLTG 180
Cdd:cd01123 80 DPDDvldnVAYARAFNSDHQTQLLDqaaAMMVESRFKLLIVDSATALY-RTDYSG-RGE----LSARQMhlAKFLRMLQR 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 181 HIKKTNTLVVFINQIRMKIG---VMFGSPETTTGGNALKFYSSVRLdirrtgSIKKGEevlgNETRVKVIKNKVAPPFRQ 257
Cdd:cd01123 154 LADEFGVAVVVTNQVVAQVDgamMFAADPKKPIGGNILAHASTTRL------YLRKGR----GETRICKIYDSPCLPEAE 223
|
250
....*....|.
gi 488141805 258 AEFDIlYGEGI 268
Cdd:cd01123 224 AVFAI-TADGV 233
|
|
| RAD55 |
COG0467 |
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms]; |
40-233 |
1.11e-12 |
|
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
Pssm-ID: 440235 [Multi-domain] Cd Length: 221 Bit Score: 66.48 E-value: 1.11e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 40 ISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQKNGGVCAFVDAEHAFDPV--YARKLGVKVEELY-- 115
Cdd:COG0467 2 VPTGIPGLDELLG-GGLPRGSSTLLSGPPGTGKTTLALQFLAEGLRRGEKGLYVSFEESPEQLlrRAESLGLDLEEYIes 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 116 -----------LSQPDTGEQALEIcDTLVRSGGIDMVVVDSVAALVPKAEIEGDmgdshvglqARLMsqaLRKLTGHIKK 184
Cdd:COG0467 81 gllriidlspeELGLDLEELLARL-REAVEEFGAKRVVIDSLSGLLLALPDPER---------LREF---LHRLLRYLKK 147
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|
gi 488141805 185 TNTLVVFINQIRMKIGVMFGSPETTTGGNALKF-YSSVRLDIRRTGSIKK 233
Cdd:COG0467 148 RGVTTLLTSETGGLEDEATEGGLSYLADGVILLrYVELGGELRRALSVLK 197
|
|
| Rad51 |
cd19513 |
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ... |
40-268 |
5.03e-12 |
|
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: 64.65 E-value: 5.03e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 40 ISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQ---KNG---GVCAFVDAEHAFDPV----YARKLGV 109
Cdd:cd19513 1 ITTGSKELDKLLG-GGIETGSITELFGEFRTGKTQLCHTLAVTCQlpiDQGggeGKALYIDTEGTFRPErllaIAERYGL 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 110 KVEEL-----YLSQPDTGEQA--LEICDTLVRSGGIDMVVVDSVAALVpKAEIEGdMGDshvgLQARLM--SQALRKLTG 180
Cdd:cd19513 80 NGEDVldnvaYARAYNTDHQMqlLIQASAMMAESRYALLIVDSATALY-RTDYSG-RGE----LSARQMhlAKFLRMLQR 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 181 HIKKTNTLVVFINQIRMKI--GVMF-GSPETTTGGNALKFYSSVRLdirrtgSIKKGEevlgNETRVKVIKNKVAPPFRQ 257
Cdd:cd19513 154 LADEFGVAVVITNQVVAQVdgAAMFaGDPKKPIGGNIMAHASTTRL------YLRKGR----GETRICKIYDSPCLPEAE 223
|
250
....*....|.
gi 488141805 258 AEFDIlYGEGI 268
Cdd:cd19513 224 AVFAI-TEDGI 233
|
|
| radA |
PRK04301 |
DNA repair and recombination protein RadA; Validated |
32-227 |
1.18e-11 |
|
DNA repair and recombination protein RadA; Validated
Pssm-ID: 235273 [Multi-domain] Cd Length: 317 Bit Score: 64.90 E-value: 1.18e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 32 QQEENLEVISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQ----KNG--GVCAFVDAEHAFDP---- 101
Cdd:PRK04301 76 ERRKNVGKITTGSKELDELLG-GGIETQSITEFYGEFGSGKTQICHQLAVNVQlpeeKGGleGKAVYIDTEGTFRPerie 154
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 102 VYARKLGVKVEEL---------YLS--QPDTGEQALEICDtlvRSGGIDMVVVDSVAALVpKAEiegdmgdsHVGL---- 166
Cdd:PRK04301 155 QMAEALGLDPDEVldnihvaraYNSdhQMLLAEKAEELIK---EGENIKLVIVDSLTAHF-RAE--------YVGRgnla 222
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 488141805 167 --QARL---MSQALRKLTGHikktNTLVVFINQIRMKIGVMFGSPETTTGGNALKFYSSVRLDIRR 227
Cdd:PRK04301 223 erQQKLnkhLHDLLRLADLY----NAAVVVTNQVMARPDAFFGDPTQPIGGHILGHTATFRIYLRK 284
|
|
| archRadA |
cd19515 |
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ... |
40-227 |
7.61e-11 |
|
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a homolog of Rad51. RAD51 recombinase plays an essential role in DNA repair by homologous recombination (HR)
Pssm-ID: 410923 [Multi-domain] Cd Length: 233 Bit Score: 61.23 E-value: 7.61e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 40 ISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQKN------GGVCAFVDAEHAFDP----VYARKLGV 109
Cdd:cd19515 1 ISTGSKELDKLLG-GGIETQAITEVFGEFGSGKTQLCHQLAVNVQLPpeegglNGKAVYIDTENTFRPerimQMAKALGL 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 110 KVEEL-----YLSQPDTGEQAL---EICDTLVRSGGIDMVVVDSVAALVpKAEiegdmgdsHVGLQARLMSQalRKLTGH 181
Cdd:cd19515 80 DPDEVldniyVARAYNSNHQMLlveKAEDLIKEGNNIKLLIVDSLTSHF-RAE--------YVGRGTLAERQ--QKLNKH 148
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 488141805 182 IKKTNTL-------VVFINQIRMKIGVMFGSPETTTGGNALKFYSSVRLDIRR 227
Cdd:cd19515 149 LHDLHRLadlyniaVLVTNQVMAKPDAFFGDPTQAIGGHILGHAATFRVYLRK 201
|
|
| XRCC3 |
cd19491 |
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ... |
47-222 |
8.14e-11 |
|
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells 3) recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. XRCC3, together with the other RAD51 paralogs, RAD51B, RAD51C, RAD51D, and XRCC2, helps recruit RAD51 to the break site.
Pssm-ID: 410899 [Multi-domain] Cd Length: 250 Bit Score: 61.54 E-value: 8.14e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 47 LDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQK-------NGGVCaFVDAEHAFdPVyaRKLgvkvEELYLSQP 119
Cdd:cd19491 1 LDELLG-GGIPVGGITEIAGESGAGKTQLCLQLALTVQLprelgglGGGAV-YICTESSF-PS--KRL----QQLASSLP 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 120 DTGEQALEICDT------------------------LVRSGGIDMVVVDSVAALVpkaEIEGDMGDSHVGLQARLMSQAL 175
Cdd:cd19491 72 KRYHLEKAKNFLdnifvehvadletlehclnyqlpaLLERGPIRLVVIDSIAALF---RSEFDTSRSDLVERAKYLRRLA 148
|
170 180 190 200
....*....|....*....|....*....|....*....|....*..
gi 488141805 176 RKLTGHIKKTNTLVVFINQIRMKIGVMFGSPETTTGGNALKFYSSVR 222
Cdd:cd19491 149 DHLKRLADKYNLAVVVVNQVTDRFDSSSDASGLGVLDYLSQFSSFSG 195
|
|
| KaiC-like |
cd01124 |
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ... |
40-233 |
8.64e-11 |
|
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: 61.13 E-value: 8.64e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 40 ISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQKNGGVCAFVDAEHAFDPVYAR--------KLGVKV 111
Cdd:cd01124 1 VKTGIPGLDELLG-GGIPKGSVTLLTGGPGTGKTLFGLQFLYAGAKNGEPGLFFTFEESPERLLRNaksfgwdfDEMEDE 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 112 EELYLSQPDTGEQALEICDTL-------VRSGGIDMVVVDSVAALvpKAEIEGDMgdshvglQARlmsQALRKLTGHIKK 184
Cdd:cd01124 80 GKLIIVDAPPTEAGRFSLDELlsrilsiIKSFKAKRVVIDSLSGL--RRAKEDQM-------RAR---RIVIALLNELRA 147
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|..
gi 488141805 185 TNTLVVFINQ---IRMKIGVMFGSPETTTGGNALKFYSSVRLDIRRTGSIKK 233
Cdd:cd01124 148 AGVTTIFTSEmrsFLSSESAGGGDVSFIVDGVILLRYVEIEGELRRTIRVLK 199
|
|
| COG4544 |
COG4544 |
Uncharacterized conserved protein [Function unknown]; |
39-144 |
1.68e-10 |
|
Uncharacterized conserved protein [Function unknown];
Pssm-ID: 443609 [Multi-domain] Cd Length: 230 Bit Score: 60.33 E-value: 1.68e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 39 VISTGSLGLDLALGVGGLPRGRIVEIFGPE-SSGKTTLCLEAVAQCQKNGGVCAFVDaeHAFDPvYA---RKLGVKVEEL 114
Cdd:COG4544 28 VLPTGFAALDAALPGGGLPRGALHEILGPApGIGELGLLLPLLARLAQAGGPVLWIA--PPYDL-YApglAAAGLDPERL 104
|
90 100 110
....*....|....*....|....*....|
gi 488141805 115 YLSQPDTGEQALEICDTLVRSGGIDMVVVD 144
Cdd:COG4544 105 LLVRARRPADALWAAEEALRSGACGAVVAW 134
|
|
| recomb_RAD51 |
TIGR02239 |
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ... |
32-269 |
1.68e-10 |
|
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: 61.28 E-value: 1.68e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 32 QQEENLEVISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQ----KNG--GVCAFVDAEHAFDPV--- 102
Cdd:TIGR02239 70 QRRQEVIQLTTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLCHTLAVTCQlpidQGGgeGKALYIDTEGTFRPErll 148
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 103 -YARKLGVKVEEL-----YLSQPDTGEQA--LEICDTLVRSGGIDMVVVDSVAALVpKAEIEGdMGDshvgLQARLMSQA 174
Cdd:TIGR02239 149 aIAERYGLNPEDVldnvaYARAYNTDHQLqlLQQAAAMMSESRFALLIVDSATALY-RTDFSG-RGE----LSARQMHLA 222
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 175 --LRKLTGHIKKTNTLVVFINQIRMKI---GVMF-GSPETTTGGNALKFYSSVRLdirrtgSIKKGEevlgNETRVKVIK 248
Cdd:TIGR02239 223 rfLRSLQRLADEFGVAVVITNQVVAQVdgaGSMFaGDPKKPIGGNIMAHASTTRL------SLRKGR----GEQRICKIY 292
|
250 260
....*....|....*....|.
gi 488141805 249 NKVAPPFRQAEFDIlYGEGIS 269
Cdd:TIGR02239 293 DSPCLPESEAMFAI-YEDGIG 312
|
|
| PLN03186 |
PLN03186 |
DNA repair protein RAD51 homolog; Provisional |
32-262 |
2.97e-10 |
|
DNA repair protein RAD51 homolog; Provisional
Pssm-ID: 178728 [Multi-domain] Cd Length: 342 Bit Score: 60.52 E-value: 2.97e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 32 QQEENLEVISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQ----KNG--GVCAFVDAEHAFDP---- 101
Cdd:PLN03186 97 AQRQEIIQITTGSRELDKILE-GGIETGSITEIYGEFRTGKTQLCHTLCVTCQlpldQGGgeGKAMYIDTEGTFRPqrli 175
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 102 VYARKLGVK----VEELYLSQPDTGEQALEIcdtLVRSGGI------DMVVVDSVAALVpKAEIEGdMGDshvgLQAR-- 169
Cdd:PLN03186 176 QIAERFGLNgadvLENVAYARAYNTDHQSEL---LLEAASMmaetrfALMIVDSATALY-RTEFSG-RGE----LSARqm 246
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 170 LMSQALRKLTGHIKKTNTLVVFINQIRMKI--GVMFGSPETT-TGGNALKFYSSVRLdirrtgSIKKGEevlGNETRVKV 246
Cdd:PLN03186 247 HLGKFLRSLQRLADEFGVAVVITNQVVAQVdgSAFFAGPQLKpIGGNIMAHASTTRL------ALRKGR---GENRICKV 317
|
250
....*....|....*.
gi 488141805 247 IKNKVAPPfRQAEFDI 262
Cdd:PLN03186 318 ISSPCLPE-AEARFSI 332
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
58-227 |
7.95e-10 |
|
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Pssm-ID: 214640 [Multi-domain] Cd Length: 148 Bit Score: 56.61 E-value: 7.95e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 58 RGRIVEIFGPESSGKTTLCLEAVAQCQKNGGVCAFVDAEHAFDPVYARKLGVKVEELYLSqpDTGEQALEICDTLVRSGG 137
Cdd:smart00382 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS--GSGELRLRLALALARKLK 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 138 IDMVVVDSVAALVPKaeiegdmgdshVGLQARLMSQALRKLTGHIKKTNTLVVFINQirmkigvmfgsPETTTGGNALKF 217
Cdd:smart00382 79 PDVLILDEITSLLDA-----------EQEALLLLLEELRLLLLLKSEKNLTVILTTN-----------DEKDLGPALLRR 136
|
170
....*....|
gi 488141805 218 YSSVRLDIRR 227
Cdd:smart00382 137 RFDRRIVLLL 146
|
|
| DMC1 |
cd19514 |
homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in ... |
40-236 |
8.53e-10 |
|
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: 58.14 E-value: 8.53e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 40 ISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLC--LEAVAQCQKN----GGVCAFVDAEHAFDP----VYARKLGV 109
Cdd:cd19514 1 ISTGSTELDKLLG-GGIESMSITEVFGEFRTGKTQLShtLCVTAQLPGSmgggGGKVAYIDTEGTFRPdrirPIAERFGV 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 110 KVEE-----LYlSQPDTGEQALEICDTL----VRSGGIDMVVVDSVAALVpKAEI--EGDMGDShvglQARLmSQALRKL 178
Cdd:cd19514 80 DHDAvldniLY-ARAYTSEHQMELLDYVaakfHEEAVFRLLIIDSIMALF-RVDFsgRGELAER----QQKL-AQMLSRL 152
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488141805 179 TgHIKKTNTLVVFI-NQIRMKIG--VMFGS-PETTTGGNALKFYSSVRLDIRRtgsiKKGEE 236
Cdd:cd19514 153 Q-KISEEYNVAVFItNQVTADPGaaMTFQAdPKKPIGGHILAHASTTRISLRK----GRGEE 209
|
|
| Rad51D |
cd19489 |
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
54-178 |
1.10e-09 |
|
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: 57.65 E-value: 1.10e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 54 GGLPRGRIVEIFGPESSGKTTLCLEAVAQ--CQKNGGVcAFVDAEHAFdpvYARKLgvkvEELYLSQPDTGEQALEICD- 130
Cdd:cd19489 2 GGLRTGEITELVGESSSGKTQLCLTAAANvaSRSGQNV-LYIDTKSSF---SARRL----AQILKSRAQDAEEIDKALQr 73
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 488141805 131 ----------TLVR----------------SGGIDMVVVDSVAALVpkAEIEGdmGDSHVGLQARLMSQA--LRKL 178
Cdd:cd19489 74 irvvrvfdpyELLDlleelrntlsqqqenlYSRLKLVIIDSLSALI--SPLLG--GSKHSEGHALLASLArlLKKL 145
|
|
| ATPase |
pfam06745 |
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ... |
40-227 |
2.38e-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: 56.87 E-value: 2.38e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 40 ISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLE-AVAQCQKNGGVCAFVDA-EHAFDPVY-ARKLGVKVEELY- 115
Cdd:pfam06745 1 VKTGIPGLDEILK-GGFPEGRVVLITGGPGTGKTIFGLQfLYNGALKYGEPGVFVTLeEPPEDLREnARSFGWDLEKLEe 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 116 --------LSQPDTGEQALEICDTL----------VRSGGIDMVVVDSVAALvpkAEIEGDMgdshvglQARlmsQALRK 177
Cdd:pfam06745 80 egklaiidASTSGIGIAEVEDRFDLeelierlreaIREIGAKRVVIDSITTL---FYLLKPA-------VAR---EILRR 146
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 488141805 178 LTGHIKKTNTLVVFINQIRMKigvmfgspETTTGGNALKFYSS---VRLDIRR 227
Cdd:pfam06745 147 LKRVLKGLGVTAIFTSEKPSG--------EGGIGGYGVEEFIVdgvIRLDLKE 191
|
|
| Rad51C |
cd19492 |
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
59-233 |
1.24e-08 |
|
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51C, together with the other RAD51 paralogs, RAD51B, RAD51D, XRCC3, and XRCC2, helps recruit RAD51 to the break site. Additionally, RAD51C acts as a mediator in the early steps of DNA damage signaling.
Pssm-ID: 410900 [Multi-domain] Cd Length: 172 Bit Score: 53.77 E-value: 1.24e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 59 GRIVEIFGPESSGKTTLCLEAVAQCQKN---GGV---CAFVDAEHAFDpVYarklgvkveelYLSQPDTGEQ--ALEICD 130
Cdd:cd19492 1 GKITEICGVPGVGKTQLCMQLAVNVQIPkcfGGLageAIYIDTEGSFN-IH-----------YFRVHDYVELlaLINSLP 68
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 131 TLVRSG-GIDMVVVDSVAALvpkaeIEGDMGDShvGLQARLMSQALRKLTGHIKKTNTLVVFINQIRMKIGVMFGSPETT 209
Cdd:cd19492 69 KFLEDHpKVKLIVVDSIAFP-----FRHDFDDL--AQRTRLLNGLAQLLHSLARQHNLAVVLTNQVTTKISEDGQSQLVP 141
|
170 180
....*....|....*....|....*....
gi 488141805 210 TGGNALKFYSSVRL-----DIRRTGSIKK 233
Cdd:cd19492 142 ALGESWSHACTTRLfltwdEKQRFAHLYK 170
|
|
| recomb_DMC1 |
TIGR02238 |
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ... |
17-236 |
1.77e-08 |
|
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: 55.17 E-value: 1.77e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 17 EKSFGKGAIMKMDGSQQEENLEVISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLC--LEAVAQCQKN----GGVC 90
Cdd:TIGR02238 55 SKIINPGFITAFEISQKRKKVLKITTGSQALDGILG-GGIESMSITEVFGEFRCGKTQLShtLCVTAQLPREmgggNGKV 133
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 91 AFVDAEHAFDP----VYARKLGVK----VEELYLSQPDTGEQALE---ICDTLVRSGGIDMVVVDSVAALVpKAEI--EG 157
Cdd:TIGR02238 134 AYIDTEGTFRPdrirAIAERFGVDpdavLDNILYARAYTSEHQMElldYLAAKFSEEPFRLLIVDSIMALF-RVDFsgRG 212
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 158 DMGDShvglQARLmSQALRKLTGHIKKTNTLVVFINQIRMKIG--VMFGS-PETTTGGNALKFYSSVRLDIRRtgsiKKG 234
Cdd:TIGR02238 213 ELSER----QQKL-AQMLSRLNKISEEFNVAVFVTNQVQADPGatMTFIAdPKKPIGGHVLAHASTTRILLRK----GRG 283
|
..
gi 488141805 235 EE 236
Cdd:TIGR02238 284 EE 285
|
|
| PTZ00035 |
PTZ00035 |
Rad51 protein; Provisional |
32-235 |
1.81e-08 |
|
Rad51 protein; Provisional
Pssm-ID: 185407 [Multi-domain] Cd Length: 337 Bit Score: 55.39 E-value: 1.81e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 32 QQEENLEVISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQ----KNG--GVCAFVDAEHAFDPvyaR 105
Cdd:PTZ00035 92 EARKNIIRITTGSTQLDKLLG-GGIETGSITELFGEFRTGKTQLCHTLCVTCQlpieQGGgeGKVLYIDTEGTFRP---E 167
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 106 KLgVKVEELYLSQPD------------TGEQALEicdtLVRSGGIDMV-------VVDSVAALVpKAEIEGdMGDshvgL 166
Cdd:PTZ00035 168 RI-VQIAERFGLDPEdvldniayarayNHEHQMQ----LLSQAAAKMAeerfallIVDSATALF-RVDYSG-RGE----L 236
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488141805 167 QARLM--SQALRKLTGHIKKTNTLVVFINQIRMKIG---VMFGSPETTTGGNALKFYSSVRLDIRRtgsiKKGE 235
Cdd:PTZ00035 237 AERQQhlGKFLRALQKLADEFNVAVVITNQVMADVDgasMFVADPKKPIGGHIIAHASTTRLSLRK----GRGE 306
|
|
| PLN03187 |
PLN03187 |
meiotic recombination protein DMC1 homolog; Provisional |
17-259 |
3.48e-08 |
|
meiotic recombination protein DMC1 homolog; Provisional
Pssm-ID: 215620 [Multi-domain] Cd Length: 344 Bit Score: 54.40 E-value: 3.48e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 17 EKSFGKGAIMKMDGSQQEENLEVISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLC--LEAVAQCQKN-GGVC--- 90
Cdd:PLN03187 85 EKLLNQGFITGSDALLKRKSVVRITTGSQALDELLG-GGIETRCITEAFGEFRSGKTQLAhtLCVTTQLPTEmGGGNgkv 163
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 91 AFVDAEHAFDP----VYARKLGVK----VEELYLSQPDTGEQ---ALEICDTLVRSGGIDMVVVDSVAALVPKAEI-EGD 158
Cdd:PLN03187 164 AYIDTEGTFRPdrivPIAERFGMDadavLDNIIYARAYTYEHqynLLLGLAAKMAEEPFRLLIVDSVIALFRVDFTgRGE 243
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 159 MGDShvglQARLmSQALRKLTGHIKKTNTLVVFINQIRMKIG--VMFGSPETTTGGNALKFYSSVRLDIRRtgsiKKGEE 236
Cdd:PLN03187 244 LAER----QQKL-AQMLSRLTKIAEEFNVAVYMTNQVIADPGggMFISDPKKPAGGHVLAHAATIRLMLRK----GKGEQ 314
|
250 260
....*....|....*....|...
gi 488141805 237 vlgnetrvKVIKNKVAPPFRQAE 259
Cdd:PLN03187 315 --------RVCKVFDAPNLPEAE 329
|
|
| RadA_SMS_N |
cd01121 |
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ... |
34-146 |
1.40e-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: 1.40e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 34 EENLEVISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQKNGGVCAFVDAEHAFDPV--YARKLGVKV 111
Cdd:cd01121 58 AEEEERISTGIGELDRVLG-GGLVPGSVVLIGGDPGIGKSTLLLQVAARLAQRGGKVLYVSGEESLSQIklRAERLGLGS 136
|
90 100 110
....*....|....*....|....*....|....*.
gi 488141805 112 EELYLsqpdTGEQALE-ICDTLVRSgGIDMVVVDSV 146
Cdd:cd01121 137 DNLYL----LAETNLEaILAEIEEL-KPSLVVIDSI 167
|
|
| RepA |
COG3598 |
RecA-family ATPase [Replication, recombination and repair]; |
56-255 |
1.20e-05 |
|
RecA-family ATPase [Replication, recombination and repair];
Pssm-ID: 442817 [Multi-domain] Cd Length: 313 Bit Score: 46.43 E-value: 1.20e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 56 LPRGRIVEIFGPESSGKTTLCLE---AVA--------QCQKngGVCAFVDAE----------HAFDPVYARKLGVKVEEL 114
Cdd:COG3598 10 LPEGGVTLLAGPPGTGKSFLALQlaaAVAaggpwlgrRVPP--GKVLYLAAEddrgelrrrlKALGADLGLPFADLDGRL 87
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 115 YLSQPDTGEQALEICDTL---VRSGGIDMVVVDSVAALvpkaeIEGDMGDSHvglQARLMSQALRKLtghIKKTNTLVVF 191
Cdd:COG3598 88 RLLSLAGDLDDTDDLEALeraIEEEGPDLVVIDPLARV-----FGGDENDAE---EMRAFLNPLDRL---AERTGAAVLL 156
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488141805 192 INQIRmKIGVMFGSPETTTGGNALKFYSSVRLDIRRtgsiKKGEEvlgnETRVKVIKNKVAPPF 255
Cdd:COG3598 157 VHHTG-KGGAGKDSGDRARGSSALRGAARSVLVLSR----EKGED----LRVLTRAKSNYGPEI 211
|
|
| KaiC-like_N |
cd19488 |
N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ... |
40-93 |
2.25e-05 |
|
N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.
Pssm-ID: 410896 [Multi-domain] Cd Length: 225 Bit Score: 45.03 E-value: 2.25e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 488141805 40 ISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQKNGGVCAFV 93
Cdd:cd19488 1 ISTGIPGLDDILR-GGLPPRRLYLVEGAPGTGKTTLALQFLLEGAANGETGLYI 53
|
|
| XRCC2 |
cd19490 |
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ... |
59-102 |
5.81e-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: 43.88 E-value: 5.81e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*
gi 488141805 59 GRIVEIFGPESSGKTTLCLEAVAQC---QKNGGVCA--------FVDAEHAFDPV 102
Cdd:cd19490 1 GDVIEITGPSGSGKTELLYHLAARCilpSSWGGVPLggleaavvFIDTDGRFDIL 55
|
|
| AAA_25 |
pfam13481 |
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins. |
56-151 |
4.53e-04 |
|
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins.
Pssm-ID: 463892 [Multi-domain] Cd Length: 193 Bit Score: 40.83 E-value: 4.53e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 56 LPRGRIVEIFGPESSGKTTLCLE---AVAQCQ---------KNGGVcAFVDAEHAFD-------------PVYARKLGVK 110
Cdd:pfam13481 30 LPAGGLGLLAGAPGTGKTTLALDlaaAVATGKpwlggprvpEQGKV-LYVSAEGPADelrrrlraagadlDLPARLLFLS 108
|
90 100 110 120
....*....|....*....|....*....|....*....|....*..
gi 488141805 111 VEE-LYLSQPDTGEQAL-----EICDTLVRSGGIDMVVVDSVAALVP 151
Cdd:pfam13481 109 LVEsLPLFFLDRGGPLLdadvdALEAALEEVEDPDLVVIDPLARALG 155
|
|
| NadR3 |
COG3172 |
Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase ... |
60-82 |
6.31e-03 |
|
Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase is part of the Pathway/BioSystem: NAD biosynthesis
Pssm-ID: 442405 [Multi-domain] Cd Length: 178 Bit Score: 37.11 E-value: 6.31e-03
|
| KaiC-like_C |
cd19487 |
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ... |
40-147 |
6.31e-03 |
|
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.
Pssm-ID: 410895 [Multi-domain] Cd Length: 219 Bit Score: 37.66 E-value: 6.31e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488141805 40 ISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLCLEAVAQCQKNGGVCAFVDAEHAFDPVYAR--KLGVKVEE---- 113
Cdd:cd19487 1 VSSGVPELDELLG-GGLERGTSTLLIGPAGVGKSTLALQFAKAAAARGERSVLFSFDESIGTLFERseALGIDLRAmvek 79
|
90 100 110 120
....*....|....*....|....*....|....*....|
gi 488141805 114 --LYLSQPDTGE----QALEICDTLVRSGGIDMVVVDSVA 147
Cdd:cd19487 80 glLSIEQIDPAElspgEFAQRVRTSVEQEDARVVVIDSLN 119
|
|
| FlaH |
COG2874 |
Archaellum biogenesis ATPase ArlH/FlaH [Cell motility]; |
38-76 |
7.02e-03 |
|
Archaellum biogenesis ATPase ArlH/FlaH [Cell motility];
Pssm-ID: 442121 Cd Length: 230 Bit Score: 37.50 E-value: 7.02e-03
10 20 30
....*....|....*....|....*....|....*....
gi 488141805 38 EVISTGSLGLDLALGvGGLPRGRIVEIFGPESSGKTTLC 76
Cdd:COG2874 1 EIISTGNDELDKRLG-GGIPLGSLVLIEGENGTGKSVLS 38
|
|
| |
