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Conserved domains on  [gi|1192727687|ref|NP_001338544|]
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DNA polymerase iota isoform e [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PolY super family cl28996
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 1-334 2.30e-148

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.


The actual alignment was detected with superfamily member cd01703:

Pssm-ID: 452909 [Multi-domain]  Cd Length: 379  Bit Score: 434.21  E-value: 2.30e-148
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSP--VVERLGFDENFVDLTEMvekrlqqlqsdelsavtvsgh 78
Cdd:cd01703    49 MSIKDAKEICPDLVLVNGEDLTPFRDMSKKVYRLLRSYSWndRVERLGFDENFMDVTEM--------------------- 107

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  79 vynnqsinlldvlhiRLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLI--HSLN 156
Cdd:cd01703   108 ---------------RLLVASHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVNKPNQQTTLLPPSCADLMdfMDLH 172

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 157 HIKEIPGIGYKTAKCLEALGINSVRDLQTFSP---------------KILEKELGISVAQRIQKLSFGEDNSPVI-LSGP 220
Cdd:cd01703   173 DLRKIPGIGYKTAAKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEGIGQRIWKLLFGRDTSPVKpASDF 252

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 221 PQSFSEEDSFKKCSSEV--EAKNKIEELLASLLNRVCQ--------DGRKPHTVRLIIRRYSSEKH-YGRESRQCPIPSH 289
Cdd:cd01703   253 PQQISIEDSYKKCSLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLTLRRYTSTKKhYNRESKQAPIPSH 332

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*..
gi 1192727687 290 VIQKLGTGNYDVMTPMVDILMKLFRNMVNVK--MPFHLTLLSVCFCN 334
Cdd:cd01703   333 VFQKLTGGNEIAARPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
Rev1_UBM2 super family cl41665
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 602-627 4.16e-03

Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, the second ubiquitin-binding motif of Rev1, a DNA damage tolerance protein. Rev1 acts as a translesion synthesis (TLS) DNA polymerase and may also recruit other TLS polymerases to the site of DNA damage; in that process the UBMs are essential for Rev1 function, triggering TLS activation via recognition of ubiquitin moieties in PCNA, the proliferating cell nuclear antigen.


The actual alignment was detected with superfamily member cd19318:

Pssm-ID: 412037  Cd Length: 36  Bit Score: 35.28  E-value: 4.16e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192727687 602 PSDIDPQVFYELPEAVQKELLAEWKR 627
Cdd:cd19318     9 FSQVDPSVLAALPPDLQEELEAAYAQ 34
 
Name Accession Description Interval E-value
PolY_Pol_iota cd01703
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ...
 1-334 2.30e-148

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: 434.21  E-value: 2.30e-148
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSP--VVERLGFDENFVDLTEMvekrlqqlqsdelsavtvsgh 78
Cdd:cd01703    49 MSIKDAKEICPDLVLVNGEDLTPFRDMSKKVYRLLRSYSWndRVERLGFDENFMDVTEM--------------------- 107

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  79 vynnqsinlldvlhiRLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLI--HSLN 156
Cdd:cd01703   108 ---------------RLLVASHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVNKPNQQTTLLPPSCADLMdfMDLH 172

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 157 HIKEIPGIGYKTAKCLEALGINSVRDLQTFSP---------------KILEKELGISVAQRIQKLSFGEDNSPVI-LSGP 220
Cdd:cd01703   173 DLRKIPGIGYKTAAKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEGIGQRIWKLLFGRDTSPVKpASDF 252

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 221 PQSFSEEDSFKKCSSEV--EAKNKIEELLASLLNRVCQ--------DGRKPHTVRLIIRRYSSEKH-YGRESRQCPIPSH 289
Cdd:cd01703   253 PQQISIEDSYKKCSLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLTLRRYTSTKKhYNRESKQAPIPSH 332

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*..
gi 1192727687 290 VIQKLGTGNYDVMTPMVDILMKLFRNMVNVK--MPFHLTLLSVCFCN 334
Cdd:cd01703   333 VFQKLTGGNEIAARPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 1-270 1.57e-51

Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 181.11  E-value: 1.57e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMvekrlqqlqsdelsavtvsghvy 80
Cdd:COG0389    55 MPLFQARRLCPDLVVLPP-DFELYRDVSRRVMAILERYTPLVEPLSIDEAFLDVTGS----------------------- 110

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  81 nnqsinlldvlhiRLLVGS--QIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLnHI 158
Cdd:COG0389   111 -------------ARLFGSaeAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGLTVIPPGEVAAFLAPL-PV 176

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 159 KEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSFKKcssEVE 238
Cdd:COG0389   177 EKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFG-KVGERLYRLARGIDPRPVEPRRPRKSIGVERTFGE---DLT 252

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 1192727687 239 AKNKIEELLASLLNRVC----QDGRKPHTVRLIIRR 270
Cdd:COG0389   253 DLEELEAALRRLAERLAerlrRQGLGARTVTVKLRT 288
PRK02406 PRK02406
DNA polymerase IV; Validated
 1-264 2.19e-34

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 133.71  E-value: 2.19e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEmvEKRLQQlqsdelSAVTvsghvy 80
Cdd:PRK02406   49 MPTAQALKLCPDLIFVPG-RFDVYKEVSRQIREIFRRYTDLIEPLSLDEAYLDVTD--NKLCIG------SATL------ 113

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  81 nnqsinlldvlhirllvgsqIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNhIKE 160
Cdd:PRK02406  114 --------------------IAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPEEVDAFLATLP-VEK 172

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 161 IPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSFKK-CSSEVEA 239
Cdd:PRK02406  173 IPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFG-KFGRRLYERARGIDERPVKPDRERKSVGVERTFAEdLYDLEAC 251

                         250       260
                  ....*....|....*....|....*...
gi 1192727687 240 KNKIEEL---LASLLNRVcQDGRKPHTV 264
Cdd:PRK02406  252 LAELPRLaekLERRLERA-KPDKRIKTV 278
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 1-132 1.12e-21

impB/mucB/samB family; These proteins are involved in UV protection (Swiss).


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 91.48  E-value: 1.12e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVnGEDLTRYREMSYKVTELLEEFSPV-VERLGFDENFVDLTEMVEkrlqqlqsdelsavtvsghv 79
Cdd:pfam00817  50 MPVFEAKKLCPNLIVV-PPDLELYRRASRKIFEILRRFSTPkVEQASIDEAFLDLTGLEK-------------------- 108

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1192727687  80 ynnqsinlldvlhiRLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVS 132
Cdd:pfam00817 109 --------------LFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLAS 147
TIGR03491 TIGR03491
RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family ...
 157-222 1.85e-04

RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats.


Pssm-ID: 274603 [Multi-domain]  Cd Length: 457  Bit Score: 44.24  E-value: 1.85e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 157 HIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEK--ELGISVAQRIQK--LSFGEdNSPVILSGPPQ 222
Cdd:TIGR03491 208 HLSLVPGIGPSRYRLLQELGIHTLEDLAAADPNDLEDfgEQGLGVAEQLVQqaRAQLE-GRPILLAPPKA 276
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 602-627 4.16e-03

Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, the second ubiquitin-binding motif of Rev1, a DNA damage tolerance protein. Rev1 acts as a translesion synthesis (TLS) DNA polymerase and may also recruit other TLS polymerases to the site of DNA damage; in that process the UBMs are essential for Rev1 function, triggering TLS activation via recognition of ubiquitin moieties in PCNA, the proliferating cell nuclear antigen.


Pssm-ID: 412037  Cd Length: 36  Bit Score: 35.28  E-value: 4.16e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192727687 602 PSDIDPQVFYELPEAVQKELLAEWKR 627
Cdd:cd19318     9 FSQVDPSVLAALPPDLQEELEAAYAQ 34
 
Name Accession Description Interval E-value
PolY_Pol_iota cd01703
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ...
 1-334 2.30e-148

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: 434.21  E-value: 2.30e-148
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSP--VVERLGFDENFVDLTEMvekrlqqlqsdelsavtvsgh 78
Cdd:cd01703    49 MSIKDAKEICPDLVLVNGEDLTPFRDMSKKVYRLLRSYSWndRVERLGFDENFMDVTEM--------------------- 107

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  79 vynnqsinlldvlhiRLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLI--HSLN 156
Cdd:cd01703   108 ---------------RLLVASHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVNKPNQQTTLLPPSCADLMdfMDLH 172

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 157 HIKEIPGIGYKTAKCLEALGINSVRDLQTFSP---------------KILEKELGISVAQRIQKLSFGEDNSPVI-LSGP 220
Cdd:cd01703   173 DLRKIPGIGYKTAAKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEGIGQRIWKLLFGRDTSPVKpASDF 252

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 221 PQSFSEEDSFKKCSSEV--EAKNKIEELLASLLNRVCQ--------DGRKPHTVRLIIRRYSSEKH-YGRESRQCPIPSH 289
Cdd:cd01703   253 PQQISIEDSYKKCSLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLTLRRYTSTKKhYNRESKQAPIPSH 332

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*..
gi 1192727687 290 VIQKLGTGNYDVMTPMVDILMKLFRNMVNVK--MPFHLTLLSVCFCN 334
Cdd:cd01703   333 VFQKLTGGNEIAARPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
PolY cd00424
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 1-333 6.04e-96

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: 298.12  E-value: 6.04e-96
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKrlqqlqsdelsavtvsghvy 80
Cdd:cd00424    53 MPVREARKMCPNLILVP-ARLDLYRRLSERLLSELEEVAPLVEVASIDELFLDLTGSARL-------------------- 111

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  81 nnqsinlldvlhirLLVGSQIAAEMREAMYNQLG-LTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIhSLNHIK 159
Cdd:cd00424   112 --------------LGLGSEVALRIKRHIAEQLGgITASIGIASNKLLAKLAAKYAKPDGLTILDPEDLPGFL-SKLPLT 176

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 160 EIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSFKKCSSEVE- 238
Cdd:cd00424   177 DLPGIGAVTAKRLEAVGINPIGDLLAASPDALLALWGGVSGERLWYALRGIDDEPLSPPRPRKSFSHERVLPRDSRNAEd 256

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 239 AKNKIEELLASLLNRVCQDGRKPHTVRLIIRRYSSE--KHYGRESRQCPIPSHViqklgtgnydVMTPMVDILMKLFRNM 316
Cdd:cd00424   257 ARPLLRLLLEKLARRLRRDGRGATRLRLWLRTVDGRwsGHADIPSRSAPRPIST----------EDGELLHALDKLWRAL 326

                         330
                  ....*....|....*..
gi 1192727687 317 VNVKMPFHLTLLSVCFC 333
Cdd:cd00424   327 LDDKGPRRLRRLGVRLS 343
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 1-290 1.26e-52

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: 183.88  E-value: 1.26e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDltemvekrlqqlqsdelsavtVSGHVY 80
Cdd:cd03586    52 MPIFQAKKLCPNLIFVPP-RFDKYREVSRQIMEILREYTPLVEPLSIDEAYLD---------------------VTDYVR 109

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  81 NNQSInlldvlhirllvgSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLnHIKE 160
Cdd:cd03586   110 LFGSA-------------TEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVIPPEDVEEFLAPL-PVRK 175

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 161 IPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSF-KKCSSEVEA 239
Cdd:cd03586   176 IPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFG-KSGRRLYELARGIDNRPVEPDRERKSIGVERTFsEDLTDPEEL 254

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1192727687 240 KNKIEELLASLLNRVCQDGRKPHTVRLIIRRYSSEKHygreSRQCPIPSHV 290
Cdd:cd03586   255 LEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTR----TRSRTLPEPT 301
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 1-270 1.57e-51

Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 181.11  E-value: 1.57e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMvekrlqqlqsdelsavtvsghvy 80
Cdd:COG0389    55 MPLFQARRLCPDLVVLPP-DFELYRDVSRRVMAILERYTPLVEPLSIDEAFLDVTGS----------------------- 110

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  81 nnqsinlldvlhiRLLVGS--QIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLnHI 158
Cdd:COG0389   111 -------------ARLFGSaeAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGLTVIPPGEVAAFLAPL-PV 176

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 159 KEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSFKKcssEVE 238
Cdd:COG0389   177 EKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFG-KVGERLYRLARGIDPRPVEPRRPRKSIGVERTFGE---DLT 252

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 1192727687 239 AKNKIEELLASLLNRVC----QDGRKPHTVRLIIRR 270
Cdd:COG0389   253 DLEELEAALRRLAERLAerlrRQGLGARTVTVKLRT 288
PolY_Pol_eta cd01702
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ...
 1-334 1.42e-35

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: 137.44  E-value: 1.42e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLV------NGED----------------LTRYREMSYKVTELLEEFSPVVERLGFDENFVDLtemv 58
Cdd:cd01702    49 MTIDEAKKKCPDLILAhvatykKGEDeadyhenpsparhkvsLDPYRRASRKILNILKRFGDVVEKASIDEAYLDL---- 124

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  59 ekrlqqlqsdelsavtvsghvynnqsinlldvlhirllvGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPN 138
Cdd:cd01702   125 ---------------------------------------GSRIVEEIRQQVYDELGYTCSAGIAHNKMLAKLASGMNKPN 165

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 139 QQTVLLPESCQHLIHSLNhIKEIPGIGYKTAKCL-EALGINSVRDLQTF--SPKILEKELGISVAQRIQKLSFGEDNSPV 215
Cdd:cd01702   166 AQTILRNDAVASFLSSLP-ITSIRGLGGKLGEEIiDLLGLPTEGDVAGFrsSESDLQEHFGEKLGEWLYNLLRGIDHEPV 244

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 216 ILSGPPQSFSEEDSF--KKCSSEVEAKNKIEELLASLLNRVCQD----GRKPHTVRLiirRYSSEKHYGRESRQCPIPSH 289
Cdd:cd01702   245 KPRPLPKSMGSSKNFpgKTALSTEDVQHWLLVLASELNSRLEDDryenNRRPKTLVL---SLRQRGDGVRRSRSCALPRY 321

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*
gi 1192727687 290 VIQKLgtgnydvMTPMVDILMKLFRNMVNVKMPFHLTLLSVCFCN 334
Cdd:cd01702   322 DAQKI-------VKDAFKLIKAINEEGLGLAWNYPLTLLSLSFTK 359
PRK02406 PRK02406
DNA polymerase IV; Validated
 1-264 2.19e-34

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 133.71  E-value: 2.19e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEmvEKRLQQlqsdelSAVTvsghvy 80
Cdd:PRK02406   49 MPTAQALKLCPDLIFVPG-RFDVYKEVSRQIREIFRRYTDLIEPLSLDEAYLDVTD--NKLCIG------SATL------ 113

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  81 nnqsinlldvlhirllvgsqIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNhIKE 160
Cdd:PRK02406  114 --------------------IAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPEEVDAFLATLP-VEK 172

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 161 IPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSFKK-CSSEVEA 239
Cdd:PRK02406  173 IPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFG-KFGRRLYERARGIDERPVKPDRERKSVGVERTFAEdLYDLEAC 251

                         250       260
                  ....*....|....*....|....*...
gi 1192727687 240 KNKIEEL---LASLLNRVcQDGRKPHTV 264
Cdd:PRK02406  252 LAELPRLaekLERRLERA-KPDKRIKTV 278
PRK01810 PRK01810
DNA polymerase IV; Validated
 1-279 4.54e-27

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 113.97  E-value: 4.54e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKrlqqlqsdelsavtvsGHVY 80
Cdd:PRK01810   61 MPLWEAKRLCPQLIVRR-PNFDRYREASRQMFQILSEFTPLVQPVSIDEGYLDITDCYAL----------------GSPL 123

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  81 nnqsinlldvlhirllvgsQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLnHIKE 160
Cdd:PRK01810  124 -------------------EIAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKKPLGITVLRKRDVPEMLWPL-PVGE 183

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 161 IPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISvAQRIQKLSFGEDNSPVilsgPPQSFSEEDS------FKKCS 234
Cdd:PRK01810  184 MHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLGIN-GVRLQRRANGIDDRPV----DPEAIYQFKSvgnsttLSHDM 258

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*.
gi 1192727687 235 SEV-EAKNKIEELLASLLNRVCQDGRKPHTVRLIIrRYSSEKHYGR 279
Cdd:PRK01810  259 DEEkELLDVLRRLSKSVSKRLQKKTVVSYNVQIMI-RYHDRRTITR 303
PolY_Pol_V_umuC cd01700
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ...
 22-294 6.27e-26

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: 109.17  E-value: 6.27e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  22 TRYREMSYKVTELLEEFSPVVERLGFDENFVDLTemvekrlqqlqsdelsavtvsgHVYNNQSINlldvlhirllvgsQI 101
Cdd:cd01700    73 ALYGDMSRRIMSILERFSPDVEVYSIDESFLDLT----------------------GSLRFGDLE-------------EL 117

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 102 AAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQT----VLLPESCQHLIHSLNHIKEIPGIGYKTAKCLEALGI 177
Cdd:cd01700   118 ARKIRRRILQETGIPVTVGIGPTKTLAKLANDLAKKKNPYggvvDLTDEEVRDKLLKILPVGDVWGIGRRTAKKLNAMGI 197

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 178 NSVRDLQTFSPKILEKELGIsVAQRIQKLSFGEDNSPVILSGPP-QSFSEEDSFKKcssEVEAKNKIEELLASLLNRVC- 255
Cdd:cd01700   198 HTAGDLAQADPDLLRKKFGV-VGERLVRELNGIDCLPLEEYPPPkKSIGSSRSFGR---DVTDLDELKQALAEYAERAAe 273

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....
gi 1192727687 256 ---QDGRKPHTVRLIIR--RYSSEKHYGRESRQCPIPSHVIQKL 294
Cdd:cd01700   274 klrRQKSVARTISVFIGtsGFSRQPKYYSATNTLPYPTNDTREI 317
PRK03348 PRK03348
DNA polymerase IV; Provisional
 24-271 2.45e-25

DNA polymerase IV; Provisional


Pssm-ID: 235118 [Multi-domain]  Cd Length: 454  Bit Score: 109.64  E-value: 2.45e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  24 YREMSYKVTELLEEFSPVVERLGFDENFVDLTEmvekrlqqLQSDELSAVTvsghvynnqsinlldvlhirllvgsQIAA 103
Cdd:PRK03348   82 YRAASRRVFDTLRELSPVVEQLSFDEAFVEPAE--------LAGASAEEVE-------------------------AFAE 128

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 104 EMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNhIKEIPGIGYKTAKCLEALGINSVRDL 183
Cdd:PRK03348  129 RLRARVREETGLPASVGAGSGKQIAKIASGLAKPDGIRVVPPGEERELLAPLP-VRRLWGIGPVTEEKLHRLGIETIGDL 207

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 184 QTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSFKK-CSSEVEAKNKIEELLASLLNRVCQDGRKPH 262
Cdd:PRK03348  208 AALSEAEVANLLGATVGPALHRLARGIDDRPVAERAEAKQISAESTFAVdLTTRAQLREAIERIAEHAHRRLLKDGRGAR 287


                  ....*....
gi 1192727687 263 TVRLIIRRY 271
Cdd:PRK03348  288 TVTVKLRKS 296
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
 1-270 1.20e-22

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: 100.85  E-value: 1.20e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVnGEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEkrlqqlqsdelsavtvsghvy 80
Cdd:cd01701   102 MWVGQAKKLCPQLVTL-PYDFEAYEEVSLTFYEILASYTDNIEAVSCDEALIDITSLLE--------------------- 159

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  81 nnQSINLLDVLhirllvGSQIAAEMREAmynqlglTGC---AGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNh 157
Cdd:cd01701   160 --ETYELPEEL------AEAIRNEIRET-------TGCsasVGIGPNILLARLATRKAKPDGQYHLSAEKVEEFLSQLK- 223

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 158 IKEIPGIGYKTA-KCLEALG-INSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQSFSEEDS----FK 231
Cdd:cd01701   224 VGDLPGVGSSLAeKLVKLFGdTCGGLELRSKTKEKLQKVLGPKTGEKLYDYCRGIDDRPVTGEKERKSVSAEINygirFT 303

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|
gi 1192727687 232 KcssEVEAKNKIEELLASLLNRVCQDGRKPHTVRL-IIRR 270
Cdd:cd01701   304 N---VDDVEQFLQRLSEELSKRLEESNVTGRQITLkLMKR 340
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 1-132 1.12e-21

impB/mucB/samB family; These proteins are involved in UV protection (Swiss).


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 91.48  E-value: 1.12e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVnGEDLTRYREMSYKVTELLEEFSPV-VERLGFDENFVDLTEMVEkrlqqlqsdelsavtvsghv 79
Cdd:pfam00817  50 MPVFEAKKLCPNLIVV-PPDLELYRRASRKIFEILRRFSTPkVEQASIDEAFLDLTGLEK-------------------- 108

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1192727687  80 ynnqsinlldvlhiRLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVS 132
Cdd:pfam00817 109 --------------LFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLAS 147
PRK03103 PRK03103
DNA polymerase IV; Reviewed
 1-289 1.87e-21

DNA polymerase IV; Reviewed


Pssm-ID: 235104 [Multi-domain]  Cd Length: 409  Bit Score: 97.00  E-value: 1.87e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVNGEdLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTemvekrlqqlqsdelsavtvsghvy 80
Cdd:PRK03103   59 ERLWEAQQKCPDLVVVKPR-MQRYIDVSLQITRILEDFTDLVEPFSIDEQFLDVT------------------------- 112

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  81 nnqsinlldvlHIRLLVGS--QIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVF---KPNQQTVLLPESCQHLIHSL 155
Cdd:PRK03103  113 -----------GSQKLFGSplEIAQKIQQRIMRETGVYARVGIGPNKLLAKMACDNFakkNPDGLFTLDKEDVPADLWPL 181

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 156 NhIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGIsVAQRIQKLSFGEDNSPVilsgPPQSFSEEDSFKKCSS 235
Cdd:PRK03103  182 P-VRKLFGVGSRMEKHLRRMGIRTIGQLANTPLERLKKRWGI-NGEVLWRTANGIDYSPV----TPHSLDRQKAIGHQMT 255

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1192727687 236 ---EVEAKNKIEELLASLLNRVCQDGRKPH----TVRLIIRrySSEKHYGRE-SRQCPIPSH 289
Cdd:PRK03103  256 lprDYRGFEEIKVVLLELCEEVCRRARAKGymgrTVSVSLR--GADFDWPTGfSRQMTLPEP 315
PRK02794 PRK02794
DNA polymerase IV; Provisional
 6-230 7.32e-19

DNA polymerase IV; Provisional


Pssm-ID: 179473 [Multi-domain]  Cd Length: 419  Bit Score: 89.22  E-value: 7.32e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   6 AKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDL--TEmvekRLQqlqsDELSAVTVSghvynnq 83
Cdd:PRK02794   94 ALKLCPDAVVIKP-DMEKYVRVGREVRAMMQALTPLVEPLSIDEAFLDLsgTE----RLH----GAPPAVVLA------- 157

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  84 sinlldvlhiRLlvgsqiAAEMREamynQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSlNHIKEIPG 163
Cdd:PRK02794  158 ----------RF------ARRVER----EIGITVSVGLSYNKFLAKIASDLDKPRGFSVIGRAEALAFLAP-KPVGIIWG 216

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1192727687 164 IGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSF 230
Cdd:PRK02794  217 VGPATAARLARDGIRTIGDLQRADEADLMRRFG-SMGLRLWRLARGIDDRKVSPDREAKSVSAETTF 282
PRK03858 PRK03858
DNA polymerase IV; Validated
 1-335 8.16e-19

DNA polymerase IV; Validated


Pssm-ID: 179663 [Multi-domain]  Cd Length: 396  Bit Score: 88.89  E-value: 8.16e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVNGEdLTRYREMSYKVTELLEEFSPVVERLGFDENFVDltemvekrlqqlqsdelsavtVSGhvy 80
Cdd:PRK03858   54 MGGRQARRLCPQAVVVPPR-MSAYSRASKAVFEVFRDTTPLVEGLSIDEAFLD---------------------VGG--- 108

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  81 nnqsinlldvlhIRLLVG--SQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNhI 158
Cdd:PRK03858  109 ------------LRRISGtpVQIAARLRRRVREEVGLPITVGVARTKFLAKVASQVAKPDGLLVVPPDRELAFLHPLP-V 175

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 159 KEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSF-KKCSSEV 237
Cdd:PRK03858  176 RRLWGVGPVTAAKLRAHGITTVGDVAELPESALVSLLGPAAGRHLHALAHNRDPRRVETGRRRRSVGAQRALgRGPNSPA 255

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 238 EaknkIEELLASLLNRVCQDGRKPH------TVRLiirRYSSekhYGRESRqcpipSHVIqklgtgnyDVMTPMVDILMK 311
Cdd:PRK03858  256 E----VDAVVVALVDRVARRMRAAGrtgrtvVLRL---RFDD---FTRATR-----SHTL--------PRPTASTATLLA 312

                         330       340
                  ....*....|....*....|....*...
gi 1192727687 312 LFRNMVNVKMPFH----LTLLSVCFCNL 335
Cdd:PRK03858  313 AARDLVAAAAPLIaergLTLVGFAVSNL 340
PRK14133 PRK14133
DNA polymerase IV; Provisional
 1-276 6.33e-18

DNA polymerase IV; Provisional


Pssm-ID: 184529 [Multi-domain]  Cd Length: 347  Bit Score: 85.54  E-value: 6.33e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVNGEdLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKrlqqlqsdelsavtvsghvy 80
Cdd:PRK14133   57 MPVFMAKKRCPHGIFLPVR-HERYKEVSKNIFKILYEVTPIVEPVSIDEAYLDITNIKEE-------------------- 115

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  81 nnqsinlldvlhirllvGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNhIKE 160
Cdd:PRK14133  116 -----------------PIKIAKYIKKKVKKETGLTLSVGISYNKFLAKLASDWNKPDGIKIITEDMIPDILKPLP-ISK 177

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 161 IPGIGYKTAKCLEALGINSVRDLQTFSPKILEK---ELGISVAQRIQklsfGEDNSPVILSGPPQSFSEEDSFKKcssEV 237
Cdd:PRK14133  178 VHGIGKKSVEKLNNIGIYTIEDLLKLSREFLIEyfgKFGVEIYERIR----GIDYREVEVSRERKSIGKETTLKK---DT 250

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 1192727687 238 EAKNKIEELLASLLNRVCQDGRKPH----TVRLIIRRYSSEKH 276
Cdd:PRK14133  251 KDKEELKKYLKDFSNIISEELKKRNlygkTVTVKIKTSDFQTH 293
PRK03352 PRK03352
DNA polymerase IV; Validated
 1-269 1.08e-16

DNA polymerase IV; Validated


Pssm-ID: 179564 [Multi-domain]  Cd Length: 346  Bit Score: 81.99  E-value: 1.08e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687   1 MNVRDAKEKCPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVdltemvekrlqqlqsdelsAVTVSGHVy 80
Cdd:PRK03352   63 MPLRTAARRCPDAVFLP-SDPAAYDAASEEVMATLRDLGVPVEVWGWDEAFL-------------------GVDTDDPE- 121

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  81 nnqsinlldvlhirllvgsQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNhIKE 160
Cdd:PRK03352  122 -------------------ALAEEIRAAVLERTGLSCSVGIGDNKLRAKIATGFAKPAGVFRLTDANWMAVMGDRP-TDA 181

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 161 IPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVIlSGP--PQSFSEEDSFKK---CSS 235
Cdd:PRK03352  182 LWGVGPKTAKRLAALGITTVADLAAADPAELAATFGPTTGPWLLLLARGGGDTEVS-AEPwvPRSRSREVTFPQdltDRA 260

                         250       260       270
                  ....*....|....*....|....*....|....
gi 1192727687 236 EVEAknKIEELLASLLNRVCQDGRKPHTVRLIIR 269
Cdd:PRK03352  261 EVES--AVRELARRVLDEVVAEGRPVTRVAVKVR 292
PRK01216 PRK01216
DNA polymerase IV; Validated
 24-215 3.73e-16

DNA polymerase IV; Validated


Pssm-ID: 179251 [Multi-domain]  Cd Length: 351  Bit Score: 80.22  E-value: 3.73e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  24 YREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKrlqqlqsdelsavtvsghvyNNQSINLldvlhirllvgsqiAA 103
Cdd:PRK01216   81 YQQVSNRIMKLLREYSEKIEIASIDEAYLDISDKVKN--------------------YQDAYNL--------------GL 126

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 104 EMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNhIKEIPGIGYKTAKCLEALGINSVRDL 183
Cdd:PRK01216  127 EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRFINELD-IADIPGIGDITAEKLKKLGVNKLVDT 205

                         170       180       190
                  ....*....|....*....|....*....|..
gi 1192727687 184 QTFSPKILEKELGISVAQRIQKLSFGEDNSPV 215
Cdd:PRK01216  206 LRIEFDELKGIIGEAKAKYLFSLARNEYNEPV 237
umuC PRK03609
translesion error-prone DNA polymerase V subunit UmuC;
24-210 2.02e-09

translesion error-prone DNA polymerase V subunit UmuC;


Pssm-ID: 179607 [Multi-domain]  Cd Length: 422  Bit Score: 60.16  E-value: 2.02e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  24 YREMSYKVTELLEEFSPVVERLGFDENFVDLTemvekrlqqlqsdelsavtvsghvynnqsinllDVLHIRLLvgSQIAA 103
Cdd:PRK03609   77 YADMSNRVMSTLEELSPRVEIYSIDEAFCDLT---------------------------------GVRNCRDL--TDFGR 121

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 104 EMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKP-NQQT---VLL--PESCQHLIhSLNHIKEIPGIGYKTAKCLEALGI 177
Cdd:PRK03609  122 EIRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKwQRQTggvVDLsnLERQRKLL-SLQPVEEVWGVGRRISKKLNAMGI 200

                         170       180       190
                  ....*....|....*....|....*....|...
gi 1192727687 178 NSVRDLQTFSPKILEKELGISVAQRIQKLSfGE 210
Cdd:PRK03609  201 KTALDLADTNIRFIRKHFNVVLERTVRELR-GE 232
PTZ00205 PTZ00205
DNA polymerase kappa; Provisional
 10-276 5.04e-08

DNA polymerase kappa; Provisional


Pssm-ID: 140232 [Multi-domain]  Cd Length: 571  Bit Score: 55.80  E-value: 5.04e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  10 CPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEkRLQQLQSDElsavtvsghvynnqsinlld 89
Cdd:PTZ00205  193 CPNLLILP-PDFDAYNEESNTVRRIVAEYDPNYISFGLDELTLEVSAYIE-RFEGTKTAE-------------------- 250

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687  90 vlhirllvgsQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVL---LPESCQHLIHSLNhIKEIPGIGY 166
Cdd:PTZ00205  251 ----------DVASELRVRVFGETKLTASAGIGPTAALAKIASNINKPNGQHDLnlhTRGDVMTYVRDLG-LRSVPGVGK 319

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 167 KTAKCLEALGINSVRDLQT--------FSPKILEKELGISVAqrIQKL-----SFGEDNSPVILSGPPQSFSEEDSFKKc 233
Cdd:PTZ00205  320 VTEALLKGLGITTLSDIYNrrvelcyiLHNNLFRFLLGASIG--IMQWpdaatAANTENCEGATGGQRKAISSERSFTT- 396

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*..
gi 1192727687 234 sseVEAKNKIEELLASLLNRVCQDGRKPH----TVRLIIrRYSSEKH 276
Cdd:PTZ00205  397 ---PRTKEGLQEMVDTVFNGAYEEMRKSElmcrQISLTI-RWASYRY 439
IMS_C pfam11799
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
 221-335 1.34e-06

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: 47.17  E-value: 1.34e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 221 PQSFSEEDSF-KKCSSEVEAKNKIEELLASLLNRVCQDGRKPHTVRLIIRRYssekHYGRESRQCPIPSHviqklgTGNY 299
Cdd:pfam11799   1 RKSIGAERTFgRDLTDLEELREALLELAEELAERLRRQGLVARTVTVKIRYS----DFRTITRSVTLPSP------TDDT 70

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1192727687 300 DVMTpmvDILMKLFRNMVNvkmPFHLTLLSVCFCNL 335
Cdd:pfam11799  71 DEIY---RAALRLLRRLYR---GRPVRLLGVSLSNL 100
TIGR03491 TIGR03491
RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family ...
 157-222 1.85e-04

RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats.


Pssm-ID: 274603 [Multi-domain]  Cd Length: 457  Bit Score: 44.24  E-value: 1.85e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727687 157 HIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEK--ELGISVAQRIQK--LSFGEdNSPVILSGPPQ 222
Cdd:TIGR03491 208 HLSLVPGIGPSRYRLLQELGIHTLEDLAAADPNDLEDfgEQGLGVAEQLVQqaRAQLE-GRPILLAPPKA 276
IMS_HHH pfam11798
IMS family HHH motif; These proteins are involved in UV protection, eg.
 145-177 2.31e-04

IMS family HHH motif; These proteins are involved in UV protection, eg.


Pssm-ID: 432081 [Multi-domain]  Cd Length: 32  Bit Score: 38.53  E-value: 2.31e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1192727687 145 PESCQHLIHSLNhIKEIPGIGYKTAKCLEALGI 177
Cdd:pfam11798   1 PDDVPEFLWPLP-ISKIPGIGKKLAEKLKALGI 32
HHH_5 pfam14520
Helix-hairpin-helix domain;
160-203 1.45e-03

Helix-hairpin-helix domain;


Pssm-ID: 434010 [Multi-domain]  Cd Length: 57  Bit Score: 37.08  E-value: 1.45e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1192727687 160 EIPGIGYKTAKCLEALGINSVRDLQTFSPKILEK--ELGISVAQRI 203
Cdd:pfam14520   6 SISGIGPKTALALLSAGIGTVEDLAEADVDELAEipGIGEKTAQRI 51
radA PRK04301
DNA repair and recombination protein RadA; Validated
 158-205 3.43e-03

DNA repair and recombination protein RadA; Validated


Pssm-ID: 235273 [Multi-domain]  Cd Length: 317  Bit Score: 39.86  E-value: 3.43e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1192727687 158 IKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGIS--VAQRIQK 205
Cdd:PRK04301    8 LEDLPGVGPATAEKLREAGYDTVEAIAVASPKELSEAAGIGesTAAKIIE 57
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 602-627 4.16e-03

Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, the second ubiquitin-binding motif of Rev1, a DNA damage tolerance protein. Rev1 acts as a translesion synthesis (TLS) DNA polymerase and may also recruit other TLS polymerases to the site of DNA damage; in that process the UBMs are essential for Rev1 function, triggering TLS activation via recognition of ubiquitin moieties in PCNA, the proliferating cell nuclear antigen.


Pssm-ID: 412037  Cd Length: 36  Bit Score: 35.28  E-value: 4.16e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192727687 602 PSDIDPQVFYELPEAVQKELLAEWKR 627
Cdd:cd19318     9 FSQVDPSVLAALPPDLQEELEAAYAQ 34
PRK10917 PRK10917
ATP-dependent DNA helicase RecG; Provisional
 158-183 6.91e-03

ATP-dependent DNA helicase RecG; Provisional


Pssm-ID: 236794 [Multi-domain]  Cd Length: 681  Bit Score: 39.36  E-value: 6.91e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192727687 158 IKEIPGIGYKTAKCLEALGINSVRDL 183
Cdd:PRK10917   11 LTSLKGVGPKTAEKLAKLGIHTVQDL 36
RecG COG1200
RecG-like helicase [Replication, recombination and repair];
158-183 7.05e-03

RecG-like helicase [Replication, recombination and repair];


Pssm-ID: 440813 [Multi-domain]  Cd Length: 684  Bit Score: 39.65  E-value: 7.05e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192727687 158 IKEIPGIGYKTAKCLEALGINSVRDL 183
Cdd:COG1200     8 LTYLKGVGPKRAKLLAKLGIRTVGDL 33
Cdd1 pfam11731
Pathogenicity locus; Cdd1 is expressed as part of the pathogenicity locus operon in several ...
 152-183 9.80e-03

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: 35.66  E-value: 9.80e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1192727687 152 IHSLNHIKEIPGIGYKTAKCLEALGINSVRDL 183
Cdd:pfam11731   2 RDGLKELQDIPNIGPAIAEDLRLLGIRSPEEL 33
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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