|
Name |
Accession |
Description |
Interval |
E-value |
| PRK03348 |
PRK03348 |
DNA polymerase IV; Provisional |
1-439 |
0e+00 |
|
DNA polymerase IV; Provisional
Pssm-ID: 235118 [Multi-domain] Cd Length: 454 Bit Score: 648.53 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 1 MRTAPTILHLDMDAFFASVEQASKPSLRGKAVVVGGLGPRGVVATASYEARVFGVHSAMPMGQARRLAPN-AAYLVPRFE 79
Cdd:PRK03348 1 MRAQRWVLHLDMDAFFASVEQLTRPTLRGRPVLVGGLGGRGVVAGASYEARVFGARSAMPMHQARRLVGNgAVVLPPRFV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 80 LYRSISEQVMRLLRALSPLVEPLSLDEAFVDlEAGGAAWDAASARLAGEKLRADIRAVTGITGSVGLAASKMLAKIASEE 159
Cdd:PRK03348 81 VYRAASRRVFDTLRELSPVVEQLSFDEAFVE-PAELAGASAEEVEAFAERLRARVREETGLPASVGAGSGKQIAKIASGL 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 160 AKPDGLVLIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKAHGHALYAMALARDERPV 239
Cdd:PRK03348 160 AKPDGIRVVPPGEERELLAPLPVRRLWGIGPVTEEKLHRLGIETIGDLAALSEAEVANLLGATVGPALHRLARGIDDRPV 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 240 VAERETKSVSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTLTRSETLRGPTDDPAVVRE 319
Cdd:PRK03348 240 AERAEAKQISAESTFAVDLTTRAQLREAIERIAEHAHRRLLKDGRGARTVTVKLRKSDFSTLTRSATLPYATDDAAVLAA 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 320 AAARLLDLVDTTGGVRLLGVGVTGLADYTQEDLFAQAAGDRAAEIADDSETTAEPAA---EQRPAPGERRWPAGHDVRHT 396
Cdd:PRK03348 320 TARRLLLDPDEIGPIRLVGVGFSGLSDVRQESLFPELDLARETAPAEEVETESAAGPsdsPAAARVEAPAWRAGQDVAHP 399
|
410 420 430 440
....*....|....*....|....*....|....*....|...
gi 2620230021 397 EHGHGWVQGSGLGRVTVRFETPYSGTGRVRTFPVDDPDLTPAD 439
Cdd:PRK03348 400 EYGHGWVQGAGHGVVTVRFETRTTGPGPVRTFPVDDPDLTPAD 442
|
|
| PolY_Pol_IV_kappa |
cd03586 |
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ... |
8-344 |
1.49e-153 |
|
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Known primarily as Pol IV in prokaryotes and Pol kappa in eukaryotes, this polymerase has a propensity for generating frameshift mutations. The eukaryotic Pol kappa differs from Pol IV and Dpo4 by an N-terminal extension of ~75 residues known as the "N-clasp" region. The structure of Pol kappa shows DNA that is almost totally encircled by Pol kappa, with the N-clasp region augmenting the interactions between DNA and the polymerase. Pol kappa is more resistant than Pol eta and Pol iota to bulky guanine adducts and is efficient at catalyzing the incorporation of dCTP. Bacterial pol IV has a higher error rate than other Y-family polymerases.
Pssm-ID: 176459 [Multi-domain] Cd Length: 334 Bit Score: 440.42 E-value: 1.49e-153
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 8 LHLDMDAFFASVEQASKPSLRGKAVVVGGLGPRGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYRSISEQ 87
Cdd:cd03586 1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSSDRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSRQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 88 VMRLLRALSPLVEPLSLDEAFVDLeaGGAAWDAASARLAGEKLRADIRAVTGITGSVGLAASKMLAKIASEEAKPDGLVL 167
Cdd:cd03586 81 IMEILREYTPLVEPLSIDEAYLDV--TDYVRLFGSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTV 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 168 IPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKaHGHALYAMALARDERPVVAERETKS 247
Cdd:cd03586 159 IPPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGK-SGRRLYELARGIDNRPVEPDRERKS 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 248 VSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTLTRSETLRGPTDDPAVVREAAARLLDL 327
Cdd:cd03586 238 IGVERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELLEE 317
|
330
....*....|....*..
gi 2620230021 328 VDTTGGVRLLGVGVTGL 344
Cdd:cd03586 318 LLDGRPIRLLGVRLSGL 334
|
|
| DinP |
COG0389 |
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ... |
5-342 |
3.34e-140 |
|
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];
Pssm-ID: 440158 [Multi-domain] Cd Length: 336 Bit Score: 406.45 E-value: 3.34e-140
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 5 PTILHLDMDAFFASVEQASKPSLRGKAVVVGGLGPRGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYRSI 84
Cdd:COG0389 1 RRILHVDMDAFYASVEQRDRPELRGKPVAVGGDNNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRDV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 85 SEQVMRLLRALSPLVEPLSLDEAFVDLeaGGAAWDAASARLAGEKLRADIRAVTGITGSVGLAASKMLAKIASEEAKPDG 164
Cdd:COG0389 81 SRRVMAILERYTPLVEPLSIDEAFLDV--TGSARLFGSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDG 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 165 LVLIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKaHGHALYAMALARDERPVVAERE 244
Cdd:COG0389 159 LTVIPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGK-VGERLYRLARGIDPRPVEPRRP 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 245 TKSVSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTLTRSETLRGPTDDPAVVREAAARL 324
Cdd:COG0389 238 RKSIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRTSDFRTTTRSRTLPEPTDDTAELLRAAREL 317
|
330
....*....|....*....
gi 2620230021 325 LDLVDTTG-GVRLLGVGVT 342
Cdd:COG0389 318 LERIYRPGrPVRLLGVRLS 336
|
|
| IMS |
pfam00817 |
impB/mucB/samB family; These proteins are involved in UV protection (Swiss). |
10-158 |
2.02e-56 |
|
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
Pssm-ID: 425885 [Multi-domain] Cd Length: 148 Bit Score: 184.70 E-value: 2.02e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 10 LDMDAFFASVEQASKPSLRGKAVVVGGLGPRGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYRSISEQVM 89
Cdd:pfam00817 1 IDMDAFFASVELLRDPELKGKPVAVGGGNGRGIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKIF 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 90 RLLRAL-SPLVEPLSLDEAFVDLeaGGAAWDAASARLAGEKLRADIRAVTGITGSVGLAASKMLAKIASE 158
Cdd:pfam00817 81 EILRRFsTPKVEQASIDEAFLDL--TGLEKLFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLASD 148
|
|
| recomb_radA |
TIGR02236 |
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA ... |
185-235 |
1.92e-03 |
|
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 131290 [Multi-domain] Cd Length: 310 Bit Score: 40.11 E-value: 1.92e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|.
gi 2620230021 185 LPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKAHGHALYAMALARD 235
Cdd:TIGR02236 4 LPGVGPATAEKLREAGYDTFEAIAVASPKELSEIAGISEGTAAKIIQAARK 54
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK03348 |
PRK03348 |
DNA polymerase IV; Provisional |
1-439 |
0e+00 |
|
DNA polymerase IV; Provisional
Pssm-ID: 235118 [Multi-domain] Cd Length: 454 Bit Score: 648.53 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 1 MRTAPTILHLDMDAFFASVEQASKPSLRGKAVVVGGLGPRGVVATASYEARVFGVHSAMPMGQARRLAPN-AAYLVPRFE 79
Cdd:PRK03348 1 MRAQRWVLHLDMDAFFASVEQLTRPTLRGRPVLVGGLGGRGVVAGASYEARVFGARSAMPMHQARRLVGNgAVVLPPRFV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 80 LYRSISEQVMRLLRALSPLVEPLSLDEAFVDlEAGGAAWDAASARLAGEKLRADIRAVTGITGSVGLAASKMLAKIASEE 159
Cdd:PRK03348 81 VYRAASRRVFDTLRELSPVVEQLSFDEAFVE-PAELAGASAEEVEAFAERLRARVREETGLPASVGAGSGKQIAKIASGL 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 160 AKPDGLVLIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKAHGHALYAMALARDERPV 239
Cdd:PRK03348 160 AKPDGIRVVPPGEERELLAPLPVRRLWGIGPVTEEKLHRLGIETIGDLAALSEAEVANLLGATVGPALHRLARGIDDRPV 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 240 VAERETKSVSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTLTRSETLRGPTDDPAVVRE 319
Cdd:PRK03348 240 AERAEAKQISAESTFAVDLTTRAQLREAIERIAEHAHRRLLKDGRGARTVTVKLRKSDFSTLTRSATLPYATDDAAVLAA 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 320 AAARLLDLVDTTGGVRLLGVGVTGLADYTQEDLFAQAAGDRAAEIADDSETTAEPAA---EQRPAPGERRWPAGHDVRHT 396
Cdd:PRK03348 320 TARRLLLDPDEIGPIRLVGVGFSGLSDVRQESLFPELDLARETAPAEEVETESAAGPsdsPAAARVEAPAWRAGQDVAHP 399
|
410 420 430 440
....*....|....*....|....*....|....*....|...
gi 2620230021 397 EHGHGWVQGSGLGRVTVRFETPYSGTGRVRTFPVDDPDLTPAD 439
Cdd:PRK03348 400 EYGHGWVQGAGHGVVTVRFETRTTGPGPVRTFPVDDPDLTPAD 442
|
|
| PolY_Pol_IV_kappa |
cd03586 |
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ... |
8-344 |
1.49e-153 |
|
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Known primarily as Pol IV in prokaryotes and Pol kappa in eukaryotes, this polymerase has a propensity for generating frameshift mutations. The eukaryotic Pol kappa differs from Pol IV and Dpo4 by an N-terminal extension of ~75 residues known as the "N-clasp" region. The structure of Pol kappa shows DNA that is almost totally encircled by Pol kappa, with the N-clasp region augmenting the interactions between DNA and the polymerase. Pol kappa is more resistant than Pol eta and Pol iota to bulky guanine adducts and is efficient at catalyzing the incorporation of dCTP. Bacterial pol IV has a higher error rate than other Y-family polymerases.
Pssm-ID: 176459 [Multi-domain] Cd Length: 334 Bit Score: 440.42 E-value: 1.49e-153
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 8 LHLDMDAFFASVEQASKPSLRGKAVVVGGLGPRGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYRSISEQ 87
Cdd:cd03586 1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSSDRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSRQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 88 VMRLLRALSPLVEPLSLDEAFVDLeaGGAAWDAASARLAGEKLRADIRAVTGITGSVGLAASKMLAKIASEEAKPDGLVL 167
Cdd:cd03586 81 IMEILREYTPLVEPLSIDEAYLDV--TDYVRLFGSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTV 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 168 IPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKaHGHALYAMALARDERPVVAERETKS 247
Cdd:cd03586 159 IPPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGK-SGRRLYELARGIDNRPVEPDRERKS 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 248 VSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTLTRSETLRGPTDDPAVVREAAARLLDL 327
Cdd:cd03586 238 IGVERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELLEE 317
|
330
....*....|....*..
gi 2620230021 328 VDTTGGVRLLGVGVTGL 344
Cdd:cd03586 318 LLDGRPIRLLGVRLSGL 334
|
|
| DinP |
COG0389 |
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ... |
5-342 |
3.34e-140 |
|
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];
Pssm-ID: 440158 [Multi-domain] Cd Length: 336 Bit Score: 406.45 E-value: 3.34e-140
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 5 PTILHLDMDAFFASVEQASKPSLRGKAVVVGGLGPRGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYRSI 84
Cdd:COG0389 1 RRILHVDMDAFYASVEQRDRPELRGKPVAVGGDNNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRDV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 85 SEQVMRLLRALSPLVEPLSLDEAFVDLeaGGAAWDAASARLAGEKLRADIRAVTGITGSVGLAASKMLAKIASEEAKPDG 164
Cdd:COG0389 81 SRRVMAILERYTPLVEPLSIDEAFLDV--TGSARLFGSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDG 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 165 LVLIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKaHGHALYAMALARDERPVVAERE 244
Cdd:COG0389 159 LTVIPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGK-VGERLYRLARGIDPRPVEPRRP 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 245 TKSVSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTLTRSETLRGPTDDPAVVREAAARL 324
Cdd:COG0389 238 RKSIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRTSDFRTTTRSRTLPEPTDDTAELLRAAREL 317
|
330
....*....|....*....
gi 2620230021 325 LDLVDTTG-GVRLLGVGVT 342
Cdd:COG0389 318 LERIYRPGrPVRLLGVRLS 336
|
|
| PRK02406 |
PRK02406 |
DNA polymerase IV; Validated |
12-353 |
9.69e-119 |
|
DNA polymerase IV; Validated
Pssm-ID: 235035 [Multi-domain] Cd Length: 343 Bit Score: 352.11 E-value: 9.69e-119
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 12 MDAFFASVEQASKPSLRGKAVVVGG-LGPRGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYRSISEQVMR 90
Cdd:PRK02406 1 MDCFYAAVEMRDNPELRGKPVAVGGsPGRRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIRE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 91 LLRALSPLVEPLSLDEAFVD---LEAGgaawdAASARLAGEKLRADIRAVTGITGSVGLAASKMLAKIASEEAKPDGLVL 167
Cdd:PRK02406 81 IFRRYTDLIEPLSLDEAYLDvtdNKLC-----IGSATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFV 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 168 IPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKaHGHALYAMALARDERPVVAERETKS 247
Cdd:PRK02406 156 ITPEEVDAFLATLPVEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFGK-FGRRLYERARGIDERPVKPDRERKS 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 248 VSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLR--GSGLSGRTIVLKVRRYDFSTLTRSETlRGPTDDPAVVREAAARLL 325
Cdd:PRK02406 235 VGVERTFAEDLYDLEACLAELPRLAEKLERRLEraKPDKRIKTVGVKLKFADFQQTTKEHT-ADPLDKADLIELLAQALL 313
|
330 340 350
....*....|....*....|....*....|
gi 2620230021 326 DLVDTTgGVRLLGVGVTGLAD--YTQEDLF 353
Cdd:PRK02406 314 RRLGGR-GVRLLGVGVTLLEPqlERQLLLD 342
|
|
| PRK02794 |
PRK02794 |
DNA polymerase IV; Provisional |
6-367 |
5.31e-107 |
|
DNA polymerase IV; Provisional
Pssm-ID: 179473 [Multi-domain] Cd Length: 419 Bit Score: 324.58 E-value: 5.31e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 6 TILHLDMDAFFASVEQASKPSLRGKAVVVGGlGPRGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYRSIS 85
Cdd:PRK02794 37 SIAHIDCDAFYASVEKRDNPELRDKPVIIGG-GKRGVVSTACYIARIHGVRSAMPMFKALKLCPDAVVIKPDMEKYVRVG 115
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 86 EQVMRLLRALSPLVEPLSLDEAFVDLeAGGAAWDAASARLAGEKLRADIRAVTGITGSVGLAASKMLAKIASEEAKPDGL 165
Cdd:PRK02794 116 REVRAMMQALTPLVEPLSIDEAFLDL-SGTERLHGAPPAVVLARFARRVEREIGITVSVGLSYNKFLAKIASDLDKPRGF 194
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 166 VLIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGkAHGHALYAMALARDERPVVAERET 245
Cdd:PRK02794 195 SVIGRAEALAFLAPKPVGIIWGVGPATAARLARDGIRTIGDLQRADEADLMRRFG-SMGLRLWRLARGIDDRKVSPDREA 273
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 246 KSVSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTLTRSETLRGPTDDPAVVREAAARLL 325
Cdd:PRK02794 274 KSVSAETTFETDLSDFEDLEPILWRLSEKVSRRLKAAGLAGRTVTLKLKTADFRLRTRRRTLEDPTQLADRIFRTARELL 353
|
330 340 350 360
....*....|....*....|....*....|....*....|....*.
gi 2620230021 326 DLVDTTGGVRLLGVGVTGLADYTQ---EDLFAQAAGDRA-AEIADD 367
Cdd:PRK02794 354 EKETDGTAFRLIGIGVSDLSPADEadpPDLLDPQATRRAaAERAID 399
|
|
| PRK03858 |
PRK03858 |
DNA polymerase IV; Validated |
2-346 |
5.50e-97 |
|
DNA polymerase IV; Validated
Pssm-ID: 179663 [Multi-domain] Cd Length: 396 Bit Score: 298.05 E-value: 5.50e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 2 RTAPTILHLDMDAFFASVEQASKPSLRGKAVVVGGlgprGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELY 81
Cdd:PRK03858 1 RADASILHADLDSFYASVEQRDDPALRGRPVIVGG----GVVLAASYEAKAYGVRTAMGGRQARRLCPQAVVVPPRMSAY 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 82 RSISEQVMRLLRALSPLVEPLSLDEAFVDLeaGGAAWDAASARLAGEKLRADIRAVTGITGSVGLAASKMLAKIASEEAK 161
Cdd:PRK03858 77 SRASKAVFEVFRDTTPLVEGLSIDEAFLDV--GGLRRISGTPVQIAARLRRRVREEVGLPITVGVARTKFLAKVASQVAK 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 162 PDGLVLIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKAHGHALYAMALARDERPVVA 241
Cdd:PRK03858 155 PDGLLVVPPDRELAFLHPLPVRRLWGVGPVTAAKLRAHGITTVGDVAELPESALVSLLGPAAGRHLHALAHNRDPRRVET 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 242 ERETKSVSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTLTRSETLRGPTDDPAVVREAA 321
Cdd:PRK03858 235 GRRRRSVGAQRALGRGPNSPAEVDAVVVALVDRVARRMRAAGRTGRTVVLRLRFDDFTRATRSHTLPRPTASTATLLAAA 314
|
330 340
....*....|....*....|....*...
gi 2620230021 322 ARLLDLVD---TTGGVRLLGVGVTGLAD 346
Cdd:PRK03858 315 RDLVAAAApliAERGLTLVGFAVSNLDD 342
|
|
| PRK14133 |
PRK14133 |
DNA polymerase IV; Provisional |
7-352 |
2.48e-86 |
|
DNA polymerase IV; Provisional
Pssm-ID: 184529 [Multi-domain] Cd Length: 347 Bit Score: 269.28 E-value: 2.48e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 7 ILHLDMDAFFASVEQASKPSLRGKAVVVGGLGPRGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYRSISE 86
Cdd:PRK14133 5 IIHVDMDAFFASVEQMDNPKLKGKPVIVGGISERGVVSTCSYEARKYGVHSAMPVFMAKKRCPHGIFLPVRHERYKEVSK 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 87 QVMRLLRALSPLVEPLSLDEAFVDLEAGGA-AWDAAsarlagEKLRADIRAVTGITGSVGLAASKMLAKIASEEAKPDGL 165
Cdd:PRK14133 85 NIFKILYEVTPIVEPVSIDEAYLDITNIKEePIKIA------KYIKKKVKKETGLTLSVGISYNKFLAKLASDWNKPDGI 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 166 VLIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKaHGHALYAMALARDERPVVAERET 245
Cdd:PRK14133 159 KIITEDMIPDILKPLPISKVHGIGKKSVEKLNNIGIYTIEDLLKLSREFLIEYFGK-FGVEIYERIRGIDYREVEVSRER 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 246 KSVSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTLTRSETLRGPTDDPAVVREAAARLL 325
Cdd:PRK14133 238 KSIGKETTLKKDTKDKEELKKYLKDFSNIISEELKKRNLYGKTVTVKIKTSDFQTHTKSKTLNDYIRDKEEIYNVACEIL 317
|
330 340
....*....|....*....|....*..
gi 2620230021 326 DLVDTTGGVRLLGVGVTGLADYTQEDL 352
Cdd:PRK14133 318 EHINIKEPIRLIGLSVSNLSENKIEQL 344
|
|
| PRK01810 |
PRK01810 |
DNA polymerase IV; Validated |
7-353 |
1.47e-77 |
|
DNA polymerase IV; Validated
Pssm-ID: 179337 [Multi-domain] Cd Length: 407 Bit Score: 248.41 E-value: 1.47e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 7 ILHLDMDAFFASVEQASKPSLRGKAVVVGGlGP---RGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYRS 83
Cdd:PRK01810 7 IFHVDMNSFFASVEIAYDPSLQGKPLAVAG-NEkerKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRRPNFDRYRE 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 84 ISEQVMRLLRALSPLVEPLSLDEAFVDLE---AGGAAWDAAsarlagEKLRADIRAVTGITGSVGLAASKMLAKIASEEA 160
Cdd:PRK01810 86 ASRQMFQILSEFTPLVQPVSIDEGYLDITdcyALGSPLEIA------KMIQQRLLTELQLPCSIGIAPNKFLAKMASDMK 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 161 KPDGLVLIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKaHGHALYAMALARDERPVV 240
Cdd:PRK01810 160 KPLGITVLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLGI-NGVRLQRRANGIDDRPVD 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 241 AER--ETKSVSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTLTRSETLRGPTDDPAVVR 318
Cdd:PRK01810 239 PEAiyQFKSVGNSTTLSHDMDEEKELLDVLRRLSKSVSKRLQKKTVVSYNVQIMIRYHDRRTITRSKTLKNPIWEKRDIF 318
|
330 340 350
....*....|....*....|....*....|....*....
gi 2620230021 319 EAAARLLDLVDTTGGVRLLGVGVTGLAD----YTQEDLF 353
Cdd:PRK01810 319 QAASRLFKQHWNGDPVRLLGVTATDLEWkteaVKQLDLF 357
|
|
| PRK03352 |
PRK03352 |
DNA polymerase IV; Validated |
7-339 |
1.54e-70 |
|
DNA polymerase IV; Validated
Pssm-ID: 179564 [Multi-domain] Cd Length: 346 Bit Score: 228.37 E-value: 1.54e-70
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 7 ILHLDMDAFFASVEQASKPSLRGKAVVVGGLG----PRGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYR 82
Cdd:PRK03352 7 VLHVDLDQFIAAVELLRRPELAGLPVIVGGNGdptePRKVVTCASYEARAFGVRAGMPLRTAARRCPDAVFLPSDPAAYD 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 83 SISEQVMRLLRALSPLVEPLSLDEAFVdleaggaAWDAASARLAGEKLRADIRAVTGITGSVGLAASKMLAKIASEEAKP 162
Cdd:PRK03352 87 AASEEVMATLRDLGVPVEVWGWDEAFL-------GVDTDDPEALAEEIRAAVLERTGLSCSVGIGDNKLRAKIATGFAKP 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 163 DGLVLIppgTERAKLEPMS---VRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKAHGHALYAMALARDERPV 239
Cdd:PRK03352 160 AGVFRL---TDANWMAVMGdrpTDALWGVGPKTAKRLAALGITTVADLAAADPAELAATFGPTTGPWLLLLARGGGDTEV 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 240 VAE-RETKSVSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTLTRSETLRGPTDDPAVVR 318
Cdd:PRK03352 237 SAEpWVPRSRSREVTFPQDLTDRAEVESAVRELARRVLDEVVAEGRPVTRVAVKVRTATFYTRTKIRKLPEPTTDPDVIE 316
|
330 340
....*....|....*....|.
gi 2620230021 319 EAAARLLDLVDTTGGVRLLGV 339
Cdd:PRK03352 317 AAALDVLDRFELDRPVRLLGV 337
|
|
| PRK03103 |
PRK03103 |
DNA polymerase IV; Reviewed |
7-368 |
2.16e-70 |
|
DNA polymerase IV; Reviewed
Pssm-ID: 235104 [Multi-domain] Cd Length: 409 Bit Score: 229.89 E-value: 2.16e-70
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 7 ILHLDMDAFFASVEQASKPSLRGKAVVVGGLGPR--GVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYRSI 84
Cdd:PRK03103 5 ILLVDMQSFYASVEKAANPELKGRPVIVSGDPERrsGVVLAACPLAKAYGVKTAERLWEAQQKCPDLVVVKPRMQRYIDV 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 85 SEQVMRLLRALSPLVEPLSLDEAFVDLEAGGAAWdaASARLAGEKLRADIRAVTGITGSVGLAASKMLAKIASE---EAK 161
Cdd:PRK03103 85 SLQITRILEDFTDLVEPFSIDEQFLDVTGSQKLF--GSPLEIAQKIQQRIMRETGVYARVGIGPNKLLAKMACDnfaKKN 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 162 PDGLVLIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKaHGHALYAMALARDERPVV- 240
Cdd:PRK03103 163 PDGLFTLDKEDVPADLWPLPVRKLFGVGSRMEKHLRRMGIRTIGQLANTPLERLKKRWGI-NGEVLWRTANGIDYSPVTp 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 241 -AERETKSVSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTLT---RSETLRGPTDDPAV 316
Cdd:PRK03103 242 hSLDRQKAIGHQMTLPRDYRGFEEIKVVLLELCEEVCRRARAKGYMGRTVSVSLRGADFDWPTgfsRQMTLPEPTNLAME 321
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|....
gi 2620230021 317 VREAAARLLDLVDTTGGVRLLGVGVTGL--ADYTQEDLFAQAAGDRAAEIADDS 368
Cdd:PRK03103 322 VYEAACKLFHRHWDGKPVRRVGVTLSNLvsDDVWQLSLFGDRERKRSLGYVMDD 375
|
|
| PolY_Rev1 |
cd01701 |
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ... |
6-344 |
3.08e-66 |
|
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Rev1 has both structural and enzymatic roles. Structurally, it is believed to interact with other nonclassical polymerases and replication machinery to act as a scaffold. Enzymatically, it catalyzes the specific insertion of dCMP opposite abasic sites. Rev1 interacts with the Rev7 subunit of the B-family TLS polymerase Pol zeta (Rev3/Rev7). Rev1 is known to actively promote the introduction of mutations, potentially making it a significant target for cancer treatment.
Pssm-ID: 176455 [Multi-domain] Cd Length: 404 Bit Score: 218.72 E-value: 3.08e-66
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 6 TILHLDMDAFFASVEQASKPSLRGKAVVVG-GLGPRGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYRSI 84
Cdd:cd01701 48 IIMHVDFDCFFVSVSIRNRPDLKGKPVAVChGKGPNSEIASCNYEARSYGIKNGMWVGQAKKLCPQLVTLPYDFEAYEEV 127
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 85 SEQVMRLLRALSPLVEPLSLDEAFVDLEAGGAAWDAASARLAgEKLRADIRAVTGITGSVGLAASKMLAKIASEEAKPDG 164
Cdd:cd01701 128 SLTFYEILASYTDNIEAVSCDEALIDITSLLEETYELPEELA-EAIRNEIRETTGCSASVGIGPNILLARLATRKAKPDG 206
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 165 LVLIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVG--ELAEAGEDELVRLLGKAHGHALYAMALARDERPVVAE 242
Cdd:cd01701 207 QYHLSAEKVEEFLSQLKVGDLPGVGSSLAEKLVKLFGDTCGglELRSKTKEKLQKVLGPKTGEKLYDYCRGIDDRPVTGE 286
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 243 RETKSVSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKV-RRYDFS--------------TLTRSETL 307
Cdd:cd01701 287 KERKSVSAEINYGIRFTNVDDVEQFLQRLSEELSKRLEESNVTGRQITLKLmKRAPGApieppkymghgicdSFSKSSTL 366
|
330 340 350
....*....|....*....|....*....|....*...
gi 2620230021 308 RGPTDDPAVVREAAARLL-DLVDTTGGVRLLGVGVTGL 344
Cdd:cd01701 367 GVATDDSGVIGTEAKKLFrDLSIPPEELRGVGIQVTKL 404
|
|
| PolY |
cd00424 |
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ... |
8-342 |
5.10e-66 |
|
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases that facilitate translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions. Unlike replicative polymerases, TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. The active sites of TLS polymerases are large and flexible to allow the accomodation of distorted bases. Most TLS polymerases are members of the Y-family, including Pol eta, Pol kappa/IV, Pol iota, Rev1, and Pol V, which is found exclusively in bacteria. In eukaryotes, the B-family polymerase Pol zeta also functions as a TLS polymerase. Expression of Y-family polymerases is often induced by DNA damage and is believed to be highly regulated. TLS is likely induced by the monoubiquitination of the replication clamp PCNA, which provides a scaffold for TLS polymerases to bind in order to access the lesion. Because of their high error rates, TLS polymerases are potential targets for cancer treatment and prevention.
Pssm-ID: 176453 [Multi-domain] Cd Length: 343 Bit Score: 216.46 E-value: 5.10e-66
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 8 LHLDMDAFFASVEQASKPSLRGK-AVVVGGLGPRGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYRSISE 86
Cdd:cd00424 1 LHIDFDNFFASVEQLARPELKGRpVVVVPFNSDSTCVIACSYEARKYGVKRGMPVREARKMCPNLILVPARLDLYRRLSE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 87 QVMRLLRALSPLVEPLSLDEAFVDLeaGGAAWDAASARLAGEKLRADIRAVTG-ITGSVGLAASKMLAKIASEEAKPDGL 165
Cdd:cd00424 81 RLLSELEEVAPLVEVASIDELFLDL--TGSARLLGLGSEVALRIKRHIAEQLGgITASIGIASNKLLAKLAAKYAKPDGL 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 166 VLIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKAHGHALYAMALARDERPVVAERET 245
Cdd:cd00424 159 TILDPEDLPGFLSKLPLTDLPGIGAVTAKRLEAVGINPIGDLLAASPDALLALWGGVSGERLWYALRGIDDEPLSPPRPR 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 246 KSVSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTL------TRSETLRGPTDDPAVVRE 319
Cdd:cd00424 239 KSFSHERVLPRDSRNAEDARPLLRLLLEKLARRLRRDGRGATRLRLWLRTVDGRWSghadipSRSAPRPISTEDGELLHA 318
|
330 340
....*....|....*....|...
gi 2620230021 320 AAARLLDLVDTTGGVRLLGVGVT 342
Cdd:cd00424 319 LDKLWRALLDDKGPRRLRRLGVR 341
|
|
| IMS |
pfam00817 |
impB/mucB/samB family; These proteins are involved in UV protection (Swiss). |
10-158 |
2.02e-56 |
|
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
Pssm-ID: 425885 [Multi-domain] Cd Length: 148 Bit Score: 184.70 E-value: 2.02e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 10 LDMDAFFASVEQASKPSLRGKAVVVGGLGPRGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYRSISEQVM 89
Cdd:pfam00817 1 IDMDAFFASVELLRDPELKGKPVAVGGGNGRGIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKIF 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 90 RLLRAL-SPLVEPLSLDEAFVDLeaGGAAWDAASARLAGEKLRADIRAVTGITGSVGLAASKMLAKIASE 158
Cdd:pfam00817 81 EILRRFsTPKVEQASIDEAFLDL--TGLEKLFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLASD 148
|
|
| PolY_Pol_V_umuC |
cd01700 |
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ... |
8-343 |
6.56e-50 |
|
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion synthesis (TLS) polymerase that consists of the heterotrimer of one umuC and two umuD subunits. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Pol V, RecA, single stranded DNA-binding protein, beta sliding clamp, and gamma clamp loading complex are responsible for inducing the SOS response in bacteria to repair UV-induced DNA damage.
Pssm-ID: 176454 [Multi-domain] Cd Length: 344 Bit Score: 173.89 E-value: 6.56e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 8 LHLDMDAFFASVEQASKPSLRGKAVVVGGlGPRGVVATASYEARVFGVhsamPMG----QARRLAPNAAYLV--PRFELY 81
Cdd:cd01700 1 ALVDCNSFYASCERVFRPLLLGRPLVVLS-NNDGCVIARSPEAKALGI----KMGspyfKVPDLLERHGVAVfsSNYALY 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 82 RSISEQVMRLLRALSPLVEPLSLDEAFVDLEaggAAWDAASARLAGEKLRADIRAVTGITGSVGLAASKMLAKIASEEAK 161
Cdd:cd01700 76 GDMSRRIMSILERFSPDVEVYSIDESFLDLT---GSLRFGDLEELARKIRRRILQETGIPVTVGIGPTKTLAKLANDLAK 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 162 -----PDGLVLIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGK--------AHGHALY 228
Cdd:cd01700 153 kknpyGGVVDLTDEEVRDKLLKILPVGDVWGIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKFGVvgerlvreLNGIDCL 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 229 AMALARDERpvvaeretKSVSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRrydFSTLTR----- 303
Cdd:cd01700 233 PLEEYPPPK--------KSIGSSRSFGRDVTDLDELKQALAEYAERAAEKLRRQKSVARTISVFIG---TSGFSRqpkyy 301
|
330 340 350 360
....*....|....*....|....*....|....*....|...
gi 2620230021 304 --SETLRGPTDDPAVVREAAARLLDLVDTTGG-VRLLGVGVTG 343
Cdd:cd01700 302 saTNTLPYPTNDTREIVKAALRLLYAIYRPGYaYRKAGVMLSD 344
|
|
| PRK01216 |
PRK01216 |
DNA polymerase IV; Validated |
7-257 |
3.11e-47 |
|
DNA polymerase IV; Validated
Pssm-ID: 179251 [Multi-domain] Cd Length: 351 Bit Score: 167.27 E-value: 3.11e-47
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 7 ILHLDMDAFFASVEQASKPSLRGKAVVV----GGLGPRGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELYR 82
Cdd:PRK01216 3 ILFVDFDYFFAQVEEVLNPSLKGKPVVVcvysGRFEDSGAVATANYEARKLGIKAGMPIVEAKKILPNAVYLPMRKEVYQ 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 83 SISEQVMRLLRALSPLVEPLSLDEAFVDLEAGGAAWDAASArlAGEKLRADIRAVTGITGSVGLAASKMLAKIASEEAKP 162
Cdd:PRK01216 83 QVSNRIMKLLREYSEKIEIASIDEAYLDISDKVKNYQDAYN--LGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKP 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 163 DGLVLIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKAhgHALYAMALARDE--RPVV 240
Cdd:PRK01216 161 NGIKVIDDEEVKRFINELDIADIPGIGDITAEKLKKLGVNKLVDTLRIEFDELKGIIGEA--KAKYLFSLARNEynEPVR 238
|
250 260
....*....|....*....|..
gi 2620230021 241 AeRETKSVS-----VEDTYDID 257
Cdd:PRK01216 239 A-RVRKSIGryvtlPRNTRDLE 259
|
|
| PolY_Pol_iota |
cd01703 |
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ... |
8-343 |
2.06e-39 |
|
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Pol iota is thought to be one of the least efficient polymerases, particularly when opposite pyrimidines; it can incorporate the correct nucleotide opposite a purine much more efficiently than opposite a pyrimidine, and prefers to insert guanosine instead of adenosine opposite thymidine. Pol iota is believed to use Hoogsteen rather than Watson-Crick base pairing, which may explain the varying efficiency for different template nucleotides.
Pssm-ID: 176457 [Multi-domain] Cd Length: 379 Bit Score: 146.85 E-value: 2.06e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 8 LHLDMDAFFASVEQASKPSLRGKAVvvgGLGPRGVVATASYEARVFGVHSAMPMGQARRLAP-----NAAYLVPrfelYR 82
Cdd:cd01703 1 IHLDLDCFYAQVEEIRDPSLKSKPL---GIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPdlvlvNGEDLTP----FR 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 83 SISEQVMRLLRALSP--LVEPLSLDEAFVDLEAGGAawdAASARLAGEkLRADIRAVTGITGSVGLAASKMLAKIASEEA 160
Cdd:cd01703 74 DMSKKVYRLLRSYSWndRVERLGFDENFMDVTEMRL---LVASHIAYE-MRERIENELGLTCCAGIASNKLLAKLVGSVN 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 161 KPDG-LVLIPPGTER--AKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAE---------------AGEDELVRLLGKA 222
Cdd:cd01703 150 KPNQqTTLLPPSCADlmDFMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQEfsnrnrqtvgaapslLELLLMVKEFGEG 229
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 223 HGHALYAMALARDERPVVAERET-KSVSVEDTY-DIDIHDRTRVGMEVRRLADRCVRRLR--------GSGLSGRTIVLK 292
Cdd:cd01703 230 IGQRIWKLLFGRDTSPVKPASDFpQQISIEDSYkKCSLEEIREARNKIEELLASLLERMKqdlqevkaGDGRRPHTLRLT 309
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 293 VRRYD-----FSTLTRS--------ETLRGPTDDPAVVREAAA-----RLLDLVDTTG-GVRLLGVGVTG 343
Cdd:cd01703 310 LRRYTstkkhYNRESKQapipshvfQKLTGGNEIAARPIEKILmrlfrELVPPKNVKGfNLTLLNVCFTN 379
|
|
| IMS_C |
pfam11799 |
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss). |
246-346 |
1.89e-28 |
|
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
Pssm-ID: 463354 [Multi-domain] Cd Length: 104 Bit Score: 108.42 E-value: 1.89e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 246 KSVSVEDTYDIDIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTLTRSETLRGPTDDPAVVREAAARLL 325
Cdd:pfam11799 2 KSIGAERTFGRDLTDLEELREALLELAEELAERLRRQGLVARTVTVKIRYSDFRTITRSVTLPSPTDDTDEIYRAALRLL 81
|
90 100
....*....|....*....|.
gi 2620230021 326 DLVDTTGGVRLLGVGVTGLAD 346
Cdd:pfam11799 82 RRLYRGRPVRLLGVSLSNLVP 102
|
|
| PolY_Pol_eta |
cd01702 |
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ... |
9-345 |
2.43e-28 |
|
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Unlike other Y-family members, Pol eta can efficiently and accurately replicate DNA past UV-induced lesions. Its activity is initiated by two simultaneous interactions: the PIP box in pol eta interacting with PCNA, and the UBZ (ubiquitin-binding zinc finger) in pol eta interacting with monoubiquitin attached to PCNA. Pol eta is more efficient in copying damaged DNA than undamaged DNA and seems to recognize when a lesion has been passed, facilitating a lesion-dependent dissociation from the DNA.
Pssm-ID: 176456 [Multi-domain] Cd Length: 359 Bit Score: 115.49 E-value: 2.43e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 9 HLDMDAFFASVEQASKPSLRGKAVVVGGLGprGVVATaSYEARVFGVHSAMPMGQARRLAPN------AAY--------- 73
Cdd:cd01702 2 HIDMDAFFAQVEQVRLGLLRNDPVAVVQWN--SIIAV-SYAARAFGVTRFMTIDEAKKKCPDlilahvATYkkgedeady 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 74 ---LVPR-----FELYRSISEQVMRLLRALSPLVEPLSLDEAFVDLeaggaawdaaSARLAGEkLRADIRAVTGITGSVG 145
Cdd:cd01702 79 henPSPArhkvsLDPYRRASRKILNILKRFGDVVEKASIDEAYLDL----------GSRIVEE-IRQQVYDELGYTCSAG 147
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 146 LAASKMLAKIASEEAKPDGLVLIPPGTERA---KLEPMSVRTLPGV-GPATGDHLrraGITTVGELA--EAGEDELVRLL 219
Cdd:cd01702 148 IAHNKMLAKLASGMNKPNAQTILRNDAVASflsSLPITSIRGLGGKlGEEIIDLL---GLPTEGDVAgfRSSESDLQEHF 224
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 220 GKAHGHALYAMALARDERPVVAERETKSVSVEDTYDidiHDRTRVGMEVRR--------LADRCVRRLRGSGLSGRTIVL 291
Cdd:cd01702 225 GEKLGEWLYNLLRGIDHEPVKPRPLPKSMGSSKNFP---GKTALSTEDVQHwllvlaseLNSRLEDDRYENNRRPKTLVL 301
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|....
gi 2620230021 292 KVRRyDFSTLTRSETLRGPTDDPAVVREAAARLLDLVDTTGGVRLLGVGVTGLA 345
Cdd:cd01702 302 SLRQ-RGDGVRRSRSCALPRYDAQKIVKDAFKLIKAINEEGLGLAWNYPLTLLS 354
|
|
| PTZ00205 |
PTZ00205 |
DNA polymerase kappa; Provisional |
2-325 |
6.46e-26 |
|
DNA polymerase kappa; Provisional
Pssm-ID: 140232 [Multi-domain] Cd Length: 571 Bit Score: 111.26 E-value: 6.46e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 2 RTAPTILHLDMDAFFASVEQASKPSLrgkAVVVGGLGPRGVVATASYEARVFGVHSAMPMGQARRLAPNAAYLVPRFELY 81
Cdd:PTZ00205 130 RRLGTYIHLDMDMFYAAVEIKKHPEY---AAIPLAIGTMTMLQTANYVARGRGIRQGMPGFLALKICPNLLILPPDFDAY 206
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 82 RSISEQVMRLLRALSPLVEPLSLDE------AFVD-LEAGGAAWDAASarlageKLRADIRAVTGITGSVGLAASKMLAK 154
Cdd:PTZ00205 207 NEESNTVRRIVAEYDPNYISFGLDEltlevsAYIErFEGTKTAEDVAS------ELRVRVFGETKLTASAGIGPTAALAK 280
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 155 IASEEAKPDG---LVLIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVG-------ELAEAGEDELVR-LLGKAH 223
Cdd:PTZ00205 281 IASNINKPNGqhdLNLHTRGDVMTYVRDLGLRSVPGVGKVTEALLKGLGITTLSdiynrrvELCYILHNNLFRfLLGASI 360
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 224 GHALY---AMALARDERPVVAERETKSVSVEDTYDIdIHDRTRVGMEVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFST 300
Cdd:PTZ00205 361 GIMQWpdaATAANTENCEGATGGQRKAISSERSFTT-PRTKEGLQEMVDTVFNGAYEEMRKSELMCRQISLTIRWASYRY 439
|
330 340
....*....|....*....|....*
gi 2620230021 301 LTRSETLRGPTDDPAVVREAAARLL 325
Cdd:PTZ00205 440 QQYTKSLIQYSDDSATLRRAVDGLL 464
|
|
| umuC |
PRK03609 |
translesion error-prone DNA polymerase V subunit UmuC; |
11-210 |
9.10e-22 |
|
translesion error-prone DNA polymerase V subunit UmuC;
Pssm-ID: 179607 [Multi-domain] Cd Length: 422 Bit Score: 97.53 E-value: 9.10e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 11 DMDAFFASVEQASKPSLRGKAVVVGGlGPRGVVATASYEARVFGVHSAMP---MGQARRLAPNAAYlVPRFELYRSISEQ 87
Cdd:PRK03609 6 DVNSFYASCETVFRPDLRGKPVVVLS-NNDGCVIARSAEAKALGIKMGDPwfkQKDLFRRCGVVCF-SSNYELYADMSNR 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 88 VMRLLRALSPLVEPLSLDEAFVDLEAGGAAWDAASarlAGEKLRADIRAVTGITGSVGLAASKMLAKIASEEAKP----- 162
Cdd:PRK03609 84 VMSTLEELSPRVEIYSIDEAFCDLTGVRNCRDLTD---FGREIRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKwqrqt 160
|
170 180 190 200
....*....|....*....|....*....|....*....|....*....
gi 2620230021 163 DGLV-LIPPGTERAKLEPMSVRTLPGVGPATGDHLRRAGITTVGELAEA 210
Cdd:PRK03609 161 GGVVdLSNLERQRKLLSLQPVEEVWGVGRRISKKLNAMGIKTALDLADT 209
|
|
| PolY_like |
cd03468 |
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ... |
32-337 |
1.42e-18 |
|
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that facilitate translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions. Unlike replicative polymerases, TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. The active sites of TLS polymerases are large and flexible to allow the accomodation of distorted bases. Expression of Y-family polymerases is often induced by DNA damage and is believed to be highly regulated. TLS is likely induced by the monoubiquitination of the replication clamp PCNA, which provides a scaffold for TLS polymerases to bind in order to access the lesion. Because of their high error rates, TLS polymerases are potential targets for cancer treatment and prevention.
Pssm-ID: 176458 [Multi-domain] Cd Length: 335 Bit Score: 86.67 E-value: 1.42e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 32 VVVGGLGPRGVVATASYEARVFGVHSAMPMGQARRLAPNAAyLVPRFELY-RSISEQVMRLLRALSPLVEPLSLDEAFVD 110
Cdd:cd03468 25 LAVVERKKAGRILACNAAARAAGVRPGMPLAEALALCPNLQ-VVEYDPEAdARALQELALWLLRFTPLVALDGPDGLLLD 103
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 111 LeaggaawdAASARLAG--EKLRADIRAV---TGITGSVGLAASKMLAKIASEEAKPDGlvlIPPGTERAKLEPMSVR-- 183
Cdd:cd03468 104 V--------TGCLHLFGgeDALAASLRAAlatLGLSARAGIADTPGAAWLLARAGGGRG---VLRREALAAALVLLAPlp 172
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 184 -TLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKAhGHALYAMALARDERPVVAE--RETKSVSVEDTYDIDIHD 260
Cdd:cd03468 173 vAALRLPPETVELLARLGLRTLGDLAALPRAELARRFGLA-LLLRLDQAYGRDPEPLLFSppPPAFDFRLELQLEEPIAR 251
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2620230021 261 RTRVGmeVRRLADRCVRRLRGSGLSGRTIVLKVRRYDFSTLTRSETLRGPTDDPAVVREAAARLLDLVDTTGG---VRLL 337
Cdd:cd03468 252 GLLFP--LRRLLEQLCAFLALRGLGARRLSLTLFREDGRVTRVLVGLARPSRDDLPLLRLLRERLERLALPRGiapVRLL 329
|
|
| Cdd1 |
pfam11731 |
Pathogenicity locus; Cdd1 is expressed as part of the pathogenicity locus operon in several ... |
183-225 |
2.90e-04 |
|
Pathogenicity locus; Cdd1 is expressed as part of the pathogenicity locus operon in several different orders of bacteria. Many members of the family are annotated as being putative mitomycin resistance proteins but this could not be confirmed.
Pssm-ID: 463333 [Multi-domain] Cd Length: 82 Bit Score: 39.51 E-value: 2.90e-04
10 20 30 40
....*....|....*....|....*....|....*....|...
gi 2620230021 183 RTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKAHGH 225
Cdd:pfam11731 9 QDIPNIGPAIAEDLRLLGIRSPEELKGRDPEELYDRLCKLTGV 51
|
|
| HHH_5 |
pfam14520 |
Helix-hairpin-helix domain; |
184-220 |
7.13e-04 |
|
Helix-hairpin-helix domain;
Pssm-ID: 434010 [Multi-domain] Cd Length: 57 Bit Score: 37.85 E-value: 7.13e-04
10 20 30
....*....|....*....|....*....|....*..
gi 2620230021 184 TLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLG 220
Cdd:pfam14520 6 SISGIGPKTALALLSAGIGTVEDLAEADVDELAEIPG 42
|
|
| radA |
PRK04301 |
DNA repair and recombination protein RadA; Validated |
181-235 |
1.01e-03 |
|
DNA repair and recombination protein RadA; Validated
Pssm-ID: 235273 [Multi-domain] Cd Length: 317 Bit Score: 41.02 E-value: 1.01e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*
gi 2620230021 181 SVRTLPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKAHGHALYAMALARD 235
Cdd:PRK04301 7 DLEDLPGVGPATAEKLREAGYDTVEAIAVASPKELSEAAGIGESTAAKIIEAARE 61
|
|
| IMS_HHH |
pfam11798 |
IMS family HHH motif; These proteins are involved in UV protection, eg. |
170-201 |
1.07e-03 |
|
IMS family HHH motif; These proteins are involved in UV protection, eg.
Pssm-ID: 432081 [Multi-domain] Cd Length: 32 Bit Score: 36.61 E-value: 1.07e-03
10 20 30
....*....|....*....|....*....|..
gi 2620230021 170 PGTERAKLEPMSVRTLPGVGPATGDHLRRAGI 201
Cdd:pfam11798 1 PDDVPEFLWPLPISKIPGIGKKLAEKLKALGI 32
|
|
| recomb_radA |
TIGR02236 |
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA ... |
185-235 |
1.92e-03 |
|
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 131290 [Multi-domain] Cd Length: 310 Bit Score: 40.11 E-value: 1.92e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|.
gi 2620230021 185 LPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKAHGHALYAMALARD 235
Cdd:TIGR02236 4 LPGVGPATAEKLREAGYDTFEAIAVASPKELSEIAGISEGTAAKIIQAARK 54
|
|
| COG2251 |
COG2251 |
Predicted nuclease, RecB family [General function prediction only]; |
185-246 |
8.12e-03 |
|
Predicted nuclease, RecB family [General function prediction only];
Pssm-ID: 441852 [Multi-domain] Cd Length: 508 Bit Score: 38.78 E-value: 8.12e-03
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2620230021 185 LPGVGPATGDHLRRAGITTVGELAEAGEDELVRLLGKAHGHALYAMAlardeRPVVAERETK 246
Cdd:COG2251 237 VAGVTPSQRAKLQAAGITTIDALAAADPPQRVPGLGKQTAARLRAQA-----RLQVEQRAGE 293
|
|
| RNA_pol_A_CTD |
pfam03118 |
Bacterial RNA polymerase, alpha chain C terminal domain; The alpha subunit of RNA polymerase ... |
196-221 |
8.29e-03 |
|
Bacterial RNA polymerase, alpha chain C terminal domain; The alpha subunit of RNA polymerase consists of two independently folded domains, referred to as amino-terminal and carboxyl terminal domains. The amino terminal domain is involved in the interaction with the other subunits of the RNA polymerase. The carboxyl-terminal domain interacts with the DNA and activators. The amino acid sequence of the alpha subunit is conserved in prokaryotic and chloroplast RNA polymerases. There are three regions of particularly strong conservation, two in the amino-terminal and one in the carboxyl- terminal.
Pssm-ID: 427148 [Multi-domain] Cd Length: 63 Bit Score: 34.82 E-value: 8.29e-03
10 20
....*....|....*....|....*...
gi 2620230021 196 LRRAGITTVGELAEAGEDEL--VRLLGK 221
Cdd:pfam03118 25 LKRAGINTVGELVALSEEDLlkIKNFGR 52
|
|
| |
