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Conserved domains on  [gi|1192732161|ref|NP_001338542|]
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DNA polymerase iota isoform d [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 ...
 56-358 7.62e-141

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: 416.10  E-value: 7.62e-141
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  56 VHVDLDCFYAQVEMISNPELKDKPLGVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVT 135
Cdd:cd01703     1 IHLDLDCFYAQVEEIRDPSLKSKPLGIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVY 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 136 ELLEEFSP--VVERLGFDENFVDLTEM---VEKRL-----QQLQ------------SDELSAVTVSG-HVYNNQC----- 187
Cdd:cd01703    81 RLLRSYSWndRVERLGFDENFMDVTEMrllVASHIayemrERIEnelgltccagiaSNKLLAKLVGSvNKPNQQTtllpp 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 188 -------------------IGYKTAKCLEALGINSVRDLQTFSP---------------KILEKELGISVAQRIQKLSFG 233
Cdd:cd01703   161 scadlmdfmdlhdlrkipgIGYKTAAKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEGIGQRIWKLLFG 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 234 EDNSPVI-LSGPPQSFSEEDSFKKCSSEV--EAKNKIEELLASLLNRVCQ--------DGRKPHTVRLIIRRYSSEKH-Y 301
Cdd:cd01703   241 RDTSPVKpASDFPQQISIEDSYKKCSLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLTLRRYTSTKKhY 320

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1192732161 302 GRESRQCPIPSHVIQKLGTGNYDVMTPMVDILMKLFRNMVNVK--MPFHLTLLSVCFCN 358
Cdd:cd01703   321 NRESKQAPIPSHVFQKLTGGNEIAARPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
Rev1_UBM2 super family cl41665
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 626-651 4.58e-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: 4.58e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192732161 626 PSDIDPQVFYELPEAVQKELLAEWKR 651
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. ...
 56-358 7.62e-141

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: 416.10  E-value: 7.62e-141
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  56 VHVDLDCFYAQVEMISNPELKDKPLGVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVT 135
Cdd:cd01703     1 IHLDLDCFYAQVEEIRDPSLKSKPLGIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVY 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 136 ELLEEFSP--VVERLGFDENFVDLTEM---VEKRL-----QQLQ------------SDELSAVTVSG-HVYNNQC----- 187
Cdd:cd01703    81 RLLRSYSWndRVERLGFDENFMDVTEMrllVASHIayemrERIEnelgltccagiaSNKLLAKLVGSvNKPNQQTtllpp 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 188 -------------------IGYKTAKCLEALGINSVRDLQTFSP---------------KILEKELGISVAQRIQKLSFG 233
Cdd:cd01703   161 scadlmdfmdlhdlrkipgIGYKTAAKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEGIGQRIWKLLFG 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 234 EDNSPVI-LSGPPQSFSEEDSFKKCSSEV--EAKNKIEELLASLLNRVCQ--------DGRKPHTVRLIIRRYSSEKH-Y 301
Cdd:cd01703   241 RDTSPVKpASDFPQQISIEDSYKKCSLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLTLRRYTSTKKhY 320

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1192732161 302 GRESRQCPIPSHVIQKLGTGNYDVMTPMVDILMKLFRNMVNVK--MPFHLTLLSVCFCN 358
Cdd:cd01703   321 NRESKQAPIPSHVFQKLTGGNEIAARPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 53-294 5.81e-53

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 185.35  E-value: 5.81e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  53 RVIVHVDLDCFYAQVEMISNPELKDKPLGV---QQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYRE 129
Cdd:COG0389     1 RRILHVDMDAFYASVEQRDRPELRGKPVAVggdNNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPP-DFELYRD 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 130 MSYKVTELLEEFSPVVERLGFDENFVDLTEMV------EKRLQQLQSD--ELSAVTVS-G--------------HVYNNQ 186
Cdd:COG0389    80 VSRRVMAILERYTPLVEPLSIDEAFLDVTGSArlfgsaEAIARRIRRRirRETGLTVSvGiapnkflakiasdlAKPDGL 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 187 C---------------------IGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPP 245
Cdd:COG0389   160 TvippgevaaflaplpveklwgVGPKTAEKLARLGIRTIGDLAALPRAELRRRFG-KVGERLYRLARGIDPRPVEPRRPR 238

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1192732161 246 QSFSEEDSFKKcssEVEAKNKIEELLASLLNRVC----QDGRKPHTVRLIIRR 294
Cdd:COG0389   239 KSIGVERTFGE---DLTDLEELEAALRRLAERLAerlrRQGLGARTVTVKLRT 288
PRK01810 PRK01810
DNA polymerase IV; Validated
 52-303 5.76e-41

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 154.42  E-value: 5.76e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  52 SRVIVHVDLDCFYAQVEMISNPELKDKPLGV-----QQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTR 126
Cdd:PRK01810    4 GRVIFHVDMNSFFASVEIAYDPSLQGKPLAVagnekERKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRR-PNFDR 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 127 YREMSYKVTELLEEFSPVVERLGFDENFVDLT------------EMVEKRLQQ--------------------------- 167
Cdd:PRK01810   83 YREASRQMFQILSEFTPLVQPVSIDEGYLDITdcyalgspleiaKMIQQRLLTelqlpcsigiapnkflakmasdmkkpl 162

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 168 ----LQSDELSAVTVSGHVYNNQCIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISvAQRIQKLSFGEDNSPVilsg 243
Cdd:PRK01810  163 gitvLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLGIN-GVRLQRRANGIDDRPV---- 237

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1192732161 244 PPQSFSEEDS------FKKCSSEV-EAKNKIEELLASLLNRVCQDGRKPHTVRLIIrRYSSEKHYGR 303
Cdd:PRK01810  238 DPEAIYQFKSvgnsttLSHDMDEEkELLDVLRRLSKSVSKRLQKKTVVSYNVQIMI-RYHDRRTITR 303
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 58-179 6.82e-38

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 137.71  E-value: 6.82e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  58 VDLDCFYAQVEMISNPELKDKPLGVQQKY---LVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVnGEDLTRYREMSYKV 134
Cdd:pfam00817   1 IDMDAFFASVELLRDPELKGKPVAVGGGNgrgIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVV-PPDLELYRRASRKI 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1192732161 135 TELLEEFSPV-VERLGFDENFVDLTEMVE---------KRLQQLQSDELSaVTVS 179
Cdd:pfam00817  80 FEILRRFSTPkVEQASIDEAFLDLTGLEKlfgaeealaKRLRREIAEETG-LTCS 133
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 626-651 4.58e-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: 4.58e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192732161 626 PSDIDPQVFYELPEAVQKELLAEWKR 651
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. ...
 56-358 7.62e-141

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: 416.10  E-value: 7.62e-141
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  56 VHVDLDCFYAQVEMISNPELKDKPLGVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVT 135
Cdd:cd01703     1 IHLDLDCFYAQVEEIRDPSLKSKPLGIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVY 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 136 ELLEEFSP--VVERLGFDENFVDLTEM---VEKRL-----QQLQ------------SDELSAVTVSG-HVYNNQC----- 187
Cdd:cd01703    81 RLLRSYSWndRVERLGFDENFMDVTEMrllVASHIayemrERIEnelgltccagiaSNKLLAKLVGSvNKPNQQTtllpp 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 188 -------------------IGYKTAKCLEALGINSVRDLQTFSP---------------KILEKELGISVAQRIQKLSFG 233
Cdd:cd01703   161 scadlmdfmdlhdlrkipgIGYKTAAKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEGIGQRIWKLLFG 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 234 EDNSPVI-LSGPPQSFSEEDSFKKCSSEV--EAKNKIEELLASLLNRVCQ--------DGRKPHTVRLIIRRYSSEKH-Y 301
Cdd:cd01703   241 RDTSPVKpASDFPQQISIEDSYKKCSLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLTLRRYTSTKKhY 320

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1192732161 302 GRESRQCPIPSHVIQKLGTGNYDVMTPMVDILMKLFRNMVNVK--MPFHLTLLSVCFCN 358
Cdd:cd01703   321 NRESKQAPIPSHVFQKLTGGNEIAARPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
PolY cd00424
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 56-357 2.95e-93

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: 291.96  E-value: 2.95e-93
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  56 VHVDLDCFYAQVEMISNPELKDKPLGVQQKY----LVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTRYREMS 131
Cdd:cd00424     1 LHIDFDNFFASVEQLARPELKGRPVVVVPFNsdstCVIACSYEARKYGVKRGMPVREARKMCPNLILVP-ARLDLYRRLS 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 132 YKVTELLEEFSPVVERLGFDENFVDLTEMVEK---------RLQQLQSDELSAVTVSGHVYNN---------------QC 187
Cdd:cd00424    80 ERLLSELEEVAPLVEVASIDELFLDLTGSARLlglgsevalRIKRHIAEQLGGITASIGIASNkllaklaakyakpdgLT 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 188 ---------------------IGYKTAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQ 246
Cdd:cd00424   160 ildpedlpgflsklpltdlpgIGAVTAKRLEAVGINPIGDLLAASPDALLALWGGVSGERLWYALRGIDDEPLSPPRPRK 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 247 SFSEEDSFKKCSSEVE-AKNKIEELLASLLNRVCQDGRKPHTVRLIIRRYSSE--KHYGRESRQCPIPSHViqklgtgny 323
Cdd:cd00424   240 SFSHERVLPRDSRNAEdARPLLRLLLEKLARRLRRDGRGATRLRLWLRTVDGRwsGHADIPSRSAPRPIST--------- 310

                         330       340       350
                  ....*....|....*....|....*....|....
gi 1192732161 324 dVMTPMVDILMKLFRNMVNVKMPFHLTLLSVCFC 357
Cdd:cd00424   311 -EDGELLHALDKLWRALLDDKGPRRLRRLGVRLS 343
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 56-314 2.04e-54

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: 189.27  E-value: 2.04e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  56 VHVDLDCFYAQVEMISNPELKDKPLGV---QQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYREMSY 132
Cdd:cd03586     1 IHIDMDAFYASVEQRDNPELKGKPVAVggsSDRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPP-RFDKYREVSR 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 133 KVTELLEEFSPVVERLGFDENFVDLTEMVE---------KRLQQLQSDELSaVTVSGHVYNN---------------QC- 187
Cdd:cd03586    80 QIMEILREYTPLVEPLSIDEAYLDVTDYVRlfgsateiaKEIRARIREETG-LTASAGIAPNkflakiasdlnkpngLTv 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 188 --------------------IGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQS 247
Cdd:cd03586   159 ippedveeflaplpvrkipgVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFG-KSGRRLYELARGIDNRPVEPDRERKS 237

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1192732161 248 FSEEDSF-KKCSSEVEAKNKIEELLASLLNRVCQDGRKPHTVRLIIRRYSSEKHygreSRQCPIPSHV 314
Cdd:cd03586   238 IGVERTFsEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTR----TRSRTLPEPT 301
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 53-294 5.81e-53

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 185.35  E-value: 5.81e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  53 RVIVHVDLDCFYAQVEMISNPELKDKPLGV---QQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYRE 129
Cdd:COG0389     1 RRILHVDMDAFYASVEQRDRPELRGKPVAVggdNNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPP-DFELYRD 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 130 MSYKVTELLEEFSPVVERLGFDENFVDLTEMV------EKRLQQLQSD--ELSAVTVS-G--------------HVYNNQ 186
Cdd:COG0389    80 VSRRVMAILERYTPLVEPLSIDEAFLDVTGSArlfgsaEAIARRIRRRirRETGLTVSvGiapnkflakiasdlAKPDGL 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 187 C---------------------IGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPP 245
Cdd:COG0389   160 TvippgevaaflaplpveklwgVGPKTAEKLARLGIRTIGDLAALPRAELRRRFG-KVGERLYRLARGIDPRPVEPRRPR 238

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1192732161 246 QSFSEEDSFKKcssEVEAKNKIEELLASLLNRVC----QDGRKPHTVRLIIRR 294
Cdd:COG0389   239 KSIGVERTFGE---DLTDLEELEAALRRLAERLAerlrRQGLGARTVTVKLRT 288
PRK01810 PRK01810
DNA polymerase IV; Validated
 52-303 5.76e-41

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 154.42  E-value: 5.76e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  52 SRVIVHVDLDCFYAQVEMISNPELKDKPLGV-----QQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTR 126
Cdd:PRK01810    4 GRVIFHVDMNSFFASVEIAYDPSLQGKPLAVagnekERKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRR-PNFDR 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 127 YREMSYKVTELLEEFSPVVERLGFDENFVDLT------------EMVEKRLQQ--------------------------- 167
Cdd:PRK01810   83 YREASRQMFQILSEFTPLVQPVSIDEGYLDITdcyalgspleiaKMIQQRLLTelqlpcsigiapnkflakmasdmkkpl 162

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 168 ----LQSDELSAVTVSGHVYNNQCIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISvAQRIQKLSFGEDNSPVilsg 243
Cdd:PRK01810  163 gitvLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLGIN-GVRLQRRANGIDDRPV---- 237

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1192732161 244 PPQSFSEEDS------FKKCSSEV-EAKNKIEELLASLLNRVCQDGRKPHTVRLIIrRYSSEKHYGR 303
Cdd:PRK01810  238 DPEAIYQFKSvgnsttLSHDMDEEkELLDVLRRLSKSVSKRLQKKTVVSYNVQIMI-RYHDRRTITR 303
PolY_Pol_eta cd01702
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ...
 56-358 1.07e-40

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: 152.08  E-value: 1.07e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  56 VHVDLDCFYAQVEMISNPELKDKPLGVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLV------NGED------ 123
Cdd:cd01702     1 AHIDMDAFFAQVEQVRLGLLRNDPVAVVQWNSIIAVSYAARAFGVTRFMTIDEAKKKCPDLILAhvatykKGEDeadyhe 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 124 ----------LTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKRLQQLQSDELSAVTVSG------------- 180
Cdd:cd01702    81 npsparhkvsLDPYRRASRKILNILKRFGDVVEKASIDEAYLDLGSRIVEEIRQQVYDELGYTCSAGiahnkmlaklasg 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 181 -HVYNNQCI---------------------GYKTAKCL-EALGINSVRDLQTF--SPKILEKELGISVAQRIQKLSFGED 235
Cdd:cd01702   161 mNKPNAQTIlrndavasflsslpitsirglGGKLGEEIiDLLGLPTEGDVAGFrsSESDLQEHFGEKLGEWLYNLLRGID 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 236 NSPVILSGPPQSFSEEDSF--KKCSSEVEAKNKIEELLASLLNRVCQD----GRKPHTVRLiirRYSSEKHYGRESRQCP 309
Cdd:cd01702   241 HEPVKPRPLPKSMGSSKNFpgKTALSTEDVQHWLLVLASELNSRLEDDryenNRRPKTLVL---SLRQRGDGVRRSRSCA 317

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*....
gi 1192732161 310 IPSHVIQKLgtgnydvMTPMVDILMKLFRNMVNVKMPFHLTLLSVCFCN 358
Cdd:cd01702   318 LPRYDAQKI-------VKDAFKLIKAINEEGLGLAWNYPLTLLSLSFTK 359
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 58-179 6.82e-38

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 137.71  E-value: 6.82e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  58 VDLDCFYAQVEMISNPELKDKPLGVQQKY---LVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVnGEDLTRYREMSYKV 134
Cdd:pfam00817   1 IDMDAFFASVELLRDPELKGKPVAVGGGNgrgIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVV-PPDLELYRRASRKI 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1192732161 135 TELLEEFSPV-VERLGFDENFVDLTEMVE---------KRLQQLQSDELSaVTVS 179
Cdd:pfam00817  80 FEILRRFSTPkVEQASIDEAFLDLTGLEKlfgaeealaKRLRREIAEETG-LTCS 133
PRK02406 PRK02406
DNA polymerase IV; Validated
 61-288 3.72e-32

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 127.54  E-value: 3.72e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  61 DCFYAQVEMISNPELKDKPLGV----QQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTE 136
Cdd:PRK02406    2 DCFYAAVEMRDNPELRGKPVAVggspGRRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPG-RFDVYKEVSRQIRE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 137 LLEEFSPVVERLGFDENFVDLTE---------MVEKRLQQLQSDELSaVTVSGHVYNN---------------QC----- 187
Cdd:PRK02406   81 IFRRYTDLIEPLSLDEAYLDVTDnklcigsatLIAQEIRQDIFEELG-LTASAGVAPNkflakiasdwnkpngLFvitpe 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 188 ----------------IGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQSFSEE 251
Cdd:PRK02406  160 evdaflatlpvekipgVGKVTAEKLHALGIYTCADLQKYDLAELIRHFG-KFGRRLYERARGIDERPVKPDRERKSVGVE 238

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|.
gi 1192732161 252 DSFKK-CSSEVEAKNKIEEL---LASLLNRVcQDGRKPHTV 288
Cdd:PRK02406  239 RTFAEdLYDLEACLAELPRLaekLERRLERA-KPDKRIKTV 278
PRK14133 PRK14133
DNA polymerase IV; Provisional
 53-300 1.26e-26

DNA polymerase IV; Provisional


Pssm-ID: 184529 [Multi-domain]  Cd Length: 347  Bit Score: 111.73  E-value: 1.26e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  53 RVIVHVDLDCFYAQVEMISNPELKDKPL---GVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEdLTRYRE 129
Cdd:PRK14133    3 RVIIHVDMDAFFASVEQMDNPKLKGKPVivgGISERGVVSTCSYEARKYGVHSAMPVFMAKKRCPHGIFLPVR-HERYKE 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 130 MSYKVTELLEEFSPVVERLGFDENFVDLTEMVE----------------------------KRLQQLQSDE--------- 172
Cdd:PRK14133   82 VSKNIFKILYEVTPIVEPVSIDEAYLDITNIKEepikiakyikkkvkketgltlsvgisynKFLAKLASDWnkpdgikii 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 173 --------LSAVTVSgHVYNnqcIGYKTAKCLEALGINSVRDLQTFSPKILEK---ELGISVAQRIQklsfGEDNSPVIL 241
Cdd:PRK14133  162 tedmipdiLKPLPIS-KVHG---IGKKSVEKLNNIGIYTIEDLLKLSREFLIEyfgKFGVEIYERIR----GIDYREVEV 233

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1192732161 242 SGPPQSFSEEDSFKKcssEVEAKNKIEELLASLLNRVCQDGRKPH----TVRLIIRRYSSEKH 300
Cdd:PRK14133  234 SRERKSIGKETTLKK---DTKDKEELKKYLKDFSNIISEELKKRNlygkTVTVKIKTSDFQTH 293
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
 23-294 2.16e-26

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: 112.02  E-value: 2.16e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  23 AWAMELADVGAAASSQ-GVHDQVLPTPNASSRVIVHVDLDCFYAQVEMISNPELKDKPLGV-QQKYL---VVTCNYEARK 97
Cdd:cd01701    16 TWKARLKDFFRELSNGsKEADPSNSIHPDLQRIIMHVDFDCFFVSVSIRNRPDLKGKPVAVcHGKGPnseIASCNYEARS 95

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  98 LGVKKLMNVRDAKEKCPQLVLVnGEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKR---LQQLQS---D 171
Cdd:cd01701    96 YGIKNGMWVGQAKKLCPQLVTL-PYDFEAYEEVSLTFYEILASYTDNIEAVSCDEALIDITSLLEETyelPEELAEairN 174

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 172 ELSAVT-------VSGHVY-----------NNQC---------------------IGYKTA-KCLEALG-INSVRDLQTF 210
Cdd:cd01701   175 EIRETTgcsasvgIGPNILlarlatrkakpDGQYhlsaekveeflsqlkvgdlpgVGSSLAeKLVKLFGdTCGGLELRSK 254

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 211 SPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQSFSEEDS----FKKcssEVEAKNKIEELLASLLNRVCQDGRKPH 286
Cdd:cd01701   255 TKEKLQKVLGPKTGEKLYDYCRGIDDRPVTGEKERKSVSAEINygirFTN---VDDVEQFLQRLSEELSKRLEESNVTGR 331


                  ....*....
gi 1192732161 287 TVRL-IIRR 294
Cdd:cd01701   332 QITLkLMKR 340
PRK02794 PRK02794
DNA polymerase IV; Provisional
 55-254 1.76e-25

DNA polymerase IV; Provisional


Pssm-ID: 179473 [Multi-domain]  Cd Length: 419  Bit Score: 109.64  E-value: 1.76e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  55 IVHVDLDCFYAQVEMISNPELKDKPL--GVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYREMSY 132
Cdd:PRK02794   38 IAHIDCDAFYASVEKRDNPELRDKPViiGGGKRGVVSTACYIARIHGVRSAMPMFKALKLCPDAVVIKP-DMEKYVRVGR 116

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 133 KVTELLEEFSPVVERLGFDENFVDL--TEMVEK--------RLQQLQSDELsAVTVS-GHVYNN---------------- 185
Cdd:PRK02794  117 EVRAMMQALTPLVEPLSIDEAFLDLsgTERLHGappavvlaRFARRVEREI-GITVSvGLSYNKflakiasdldkprgfs 195

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 186 -------------------QCIGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQ 246
Cdd:PRK02794  196 vigraealaflapkpvgiiWGVGPATAARLARDGIRTIGDLQRADEADLMRRFG-SMGLRLWRLARGIDDRKVSPDREAK 274


                  ....*...
gi 1192732161 247 SFSEEDSF 254
Cdd:PRK02794  275 SVSAETTF 282
PRK03352 PRK03352
DNA polymerase IV; Validated
 53-293 9.18e-25

DNA polymerase IV; Validated


Pssm-ID: 179564 [Multi-domain]  Cd Length: 346  Bit Score: 105.87  E-value: 9.18e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  53 RVIVHVDLDCFYAQVEMISNPELKDKPLGV------QQKYLVVTC-NYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLT 125
Cdd:PRK03352    5 RWVLHVDLDQFIAAVELLRRPELAGLPVIVggngdpTEPRKVVTCaSYEARAFGVRAGMPLRTAARRCPDAVFLP-SDPA 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 126 RYREMSYKVTELLEEFSPVVERLGFDENFVDLT----EMVEKRLQQLQSDE-------------LSAVTVSGH-----VY 183
Cdd:PRK03352   84 AYDAASEEVMATLRDLGVPVEVWGWDEAFLGVDtddpEALAEEIRAAVLERtglscsvgigdnkLRAKIATGFakpagVF 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 184 ----NNQC-------------IGYKTAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVIlSGP-- 244
Cdd:PRK03352  164 rltdANWMavmgdrptdalwgVGPKTAKRLAALGITTVADLAAADPAELAATFGPTTGPWLLLLARGGGDTEVS-AEPwv 242

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1192732161 245 PQSFSEEDSFKK---CSSEVEAknKIEELLASLLNRVCQDGRKPHTVRLIIR 293
Cdd:PRK03352  243 PRSRSREVTFPQdltDRAEVES--AVRELARRVLDEVVAEGRPVTRVAVKVR 292
PRK03348 PRK03348
DNA polymerase IV; Provisional
 50-295 2.83e-23

DNA polymerase IV; Provisional


Pssm-ID: 235118 [Multi-domain]  Cd Length: 454  Bit Score: 103.48  E-value: 2.83e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  50 ASSRVIVHVDLDCFYAQVEMISNPELKDKPL---GVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTR 126
Cdd:PRK03348    2 RAQRWVLHLDMDAFFASVEQLTRPTLRGRPVlvgGLGGRGVVAGASYEARVFGARSAMPMHQARRLVGNGAVVLPPRFVV 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 127 YREMSYKVTELLEEFSPVVERLGFDENFVDLTEM-------VEKRLQQLQS----------------------------- 170
Cdd:PRK03348   82 YRAASRRVFDTLRELSPVVEQLSFDEAFVEPAELagasaeeVEAFAERLRArvreetglpasvgagsgkqiakiasglak 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 171 ----------------DELSAVTVSGhvynnqcIGYKTAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGE 234
Cdd:PRK03348  162 pdgirvvppgeerellAPLPVRRLWG-------IGPVTEEKLHRLGIETIGDLAALSEAEVANLLGATVGPALHRLARGI 234

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1192732161 235 DNSPVILSGPPQSFSEEDSFKK-CSSEVEAKNKIEELLASLLNRVCQDGRKPHTVRLIIRRY 295
Cdd:PRK03348  235 DDRPVAERAEAKQISAESTFAVdLTTRAQLREAIERIAEHAHRRLLKDGRGARTVTVKLRKS 296
PolY_Pol_V_umuC cd01700
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ...
 58-318 4.90e-21

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: 94.92  E-value: 4.90e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  58 VDLDCFYAQVEMISNPELKDKPLGVqqkyL------VVTCNYEARKLGVKKLMNVRDAKEKCPQL-VLVNGEDLTRYREM 130
Cdd:cd01700     3 VDCNSFYASCERVFRPLLLGRPLVV----LsnndgcVIARSPEAKALGIKMGSPYFKVPDLLERHgVAVFSSNYALYGDM 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 131 SYKVTELLEEFSPVVERLGFDENFVDLTEM--------VEKRLQQLQSDELS-AVTV---------------------SG 180
Cdd:cd01700    79 SRRIMSILERFSPDVEVYSIDESFLDLTGSlrfgdleeLARKIRRRILQETGiPVTVgigptktlaklandlakkknpYG 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 181 HV----YNNQC--------------IGYKTAKCLEALGINSVRDLQTFSPKILEKELGIsVAQRIQKLSFGEDNSPVILS 242
Cdd:cd01700   159 GVvdltDEEVRdkllkilpvgdvwgIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKFGV-VGERLVRELNGIDCLPLEEY 237

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 243 GPP-QSFSEEDSFKKcssEVEAKNKIEELLASLLNRVC----QDGRKPHTVRLIIR--RYSSEKHYGRESRQCPIPSHVI 315
Cdd:cd01700   238 PPPkKSIGSSRSFGR---DVTDLDELKQALAEYAERAAeklrRQKSVARTISVFIGtsGFSRQPKYYSATNTLPYPTNDT 314


                  ...
gi 1192732161 316 QKL 318
Cdd:cd01700   315 REI 317
PRK03103 PRK03103
DNA polymerase IV; Reviewed
 53-313 2.50e-20

DNA polymerase IV; Reviewed


Pssm-ID: 235104 [Multi-domain]  Cd Length: 409  Bit Score: 93.91  E-value: 2.50e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  53 RVIVHVDLDCFYAQVEMISNPELKDKPLGV-----QQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEdLTRY 127
Cdd:PRK03103    3 RVILLVDMQSFYASVEKAANPELKGRPVIVsgdpeRRSGVVLAACPLAKAYGVKTAERLWEAQQKCPDLVVVKPR-MQRY 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 128 REMSYKVTELLEEFSPVVERLGFDENFVDLT---------EMVEKRLQQ------------------------------- 167
Cdd:PRK03103   82 IDVSLQITRILEDFTDLVEPFSIDEQFLDVTgsqklfgspLEIAQKIQQrimretgvyarvgigpnkllakmacdnfakk 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 168 -------LQSDELSAVTVSGHVYNNQCIGYKTAKCLEALGINSVRDLQTFSPKILEKELGIsVAQRIQKLSFGEDNSPVi 240
Cdd:PRK03103  162 npdglftLDKEDVPADLWPLPVRKLFGVGSRMEKHLRRMGIRTIGQLANTPLERLKKRWGI-NGEVLWRTANGIDYSPV- 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 241 lsgPPQSFSEEDSFKKCSS---EVEAKNKIEELLASLLNRVCQDGRKPH----TVRLIIRrySSEKHYGRE-SRQCPIPS 312
Cdd:PRK03103  240 ---TPHSLDRQKAIGHQMTlprDYRGFEEIKVVLLELCEEVCRRARAKGymgrTVSVSLR--GADFDWPTGfSRQMTLPE 314


                  .
gi 1192732161 313 H 313
Cdd:PRK03103  315 P 315
PRK03858 PRK03858
DNA polymerase IV; Validated
 55-156 4.21e-20

DNA polymerase IV; Validated


Pssm-ID: 179663 [Multi-domain]  Cd Length: 396  Bit Score: 93.13  E-value: 4.21e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  55 IVHVDLDCFYAQVEMISNPELKDKPL----GVqqkylVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEdLTRYREM 130
Cdd:PRK03858    6 ILHADLDSFYASVEQRDDPALRGRPVivggGV-----VLAASYEAKAYGVRTAMGGRQARRLCPQAVVVPPR-MSAYSRA 79

                          90       100
                  ....*....|....*....|....*.
gi 1192732161 131 SYKVTELLEEFSPVVERLGFDENFVD 156
Cdd:PRK03858   80 SKAVFEVFRDTTPLVEGLSIDEAFLD 105
PRK01216 PRK01216
DNA polymerase IV; Validated
 54-239 2.06e-18

DNA polymerase IV; Validated


Pssm-ID: 179251 [Multi-domain]  Cd Length: 351  Bit Score: 87.15  E-value: 2.06e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  54 VIVHVDLDCFYAQVEMISNPELKDKPLGV-------QQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTr 126
Cdd:PRK01216    2 IILFVDFDYFFAQVEEVLNPSLKGKPVVVcvysgrfEDSGAVATANYEARKLGIKAGMPIVEAKKILPNAVYLPMRKEV- 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 127 YREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVE----------KRLQQLQSDELSAVTVS----------------- 179
Cdd:PRK01216   81 YQQVSNRIMKLLREYSEKIEIASIDEAYLDISDKVKnyqdaynlglEIKNKILEKEKITVTVGisknkvfakiaadmakp 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1192732161 180 ---GHVYNNQC--------------IGYKTAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPV 239
Cdd:PRK01216  161 ngiKVIDDEEVkrfineldiadipgIGDITAEKLKKLGVNKLVDTLRIEFDELKGIIGEAKAKYLFSLARNEYNEPV 237
PTZ00205 PTZ00205
DNA polymerase kappa; Provisional
 56-163 1.22e-11

DNA polymerase kappa; Provisional


Pssm-ID: 140232 [Multi-domain]  Cd Length: 571  Bit Score: 67.74  E-value: 1.22e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  56 VHVDLDCFYAQVEMISNPELKDKPLGVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTRYREMSYKVT 135
Cdd:PTZ00205  136 IHLDMDMFYAAVEIKKHPEYAAIPLAIGTMTMLQTANYVARGRGIRQGMPGFLALKICPNLLILP-PDFDAYNEESNTVR 214

                          90       100
                  ....*....|....*....|....*...
gi 1192732161 136 ELLEEFSPVVERLGFDENFVDLTEMVEK 163
Cdd:PTZ00205  215 RIVAEYDPNYISFGLDELTLEVSAYIER 242
umuC PRK03609
translesion error-prone DNA polymerase V subunit UmuC;
57-158 1.20e-09

translesion error-prone DNA polymerase V subunit UmuC;


Pssm-ID: 179607 [Multi-domain]  Cd Length: 422  Bit Score: 60.93  E-value: 1.20e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  57 HVDLDCFYAQVEMISNPELKDKPLGV--QQKYLVVTCNYEARKLGVK---KLMNVRDAKEKCPQLVLVNGEDLtrYREMS 131
Cdd:PRK03609    4 LCDVNSFYASCETVFRPDLRGKPVVVlsNNDGCVIARSAEAKALGIKmgdPWFKQKDLFRRCGVVCFSSNYEL--YADMS 81

                          90       100
                  ....*....|....*....|....*..
gi 1192732161 132 YKVTELLEEFSPVVERLGFDENFVDLT 158
Cdd:PRK03609   82 NRVMSTLEELSPRVEIYSIDEAFCDLT 108
IMS_C pfam11799
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
 245-359 9.92e-07

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: 47.55  E-value: 9.92e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161 245 PQSFSEEDSF-KKCSSEVEAKNKIEELLASLLNRVCQDGRKPHTVRLIIRRYssekHYGRESRQCPIPSHviqklgTGNY 323
Cdd:pfam11799   1 RKSIGAERTFgRDLTDLEELREALLELAEELAERLRRQGLVARTVTVKIRYS----DFRTITRSVTLPSP------TDDT 70

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1192732161 324 DVMTpmvDILMKLFRNMVNvkmPFHLTLLSVCFCNL 359
Cdd:pfam11799  71 DEIY---RAALRLLRRLYR---GRPVRLLGVSLSNL 100
PolY_like cd03468
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ...
 73-158 4.97e-05

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: 45.84  E-value: 4.97e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192732161  73 PELKDKPLGV--QQKYLVVT-CNYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLG 149
Cdd:cd03468    18 PADDEAPLAVveRKKAGRILaCNAAARAAGVRPGMPLAEALALCPNLQVVE-YDPEADARALQELALWLLRFTPLVALDG 96


                  ....*....
gi 1192732161 150 FDENFVDLT 158
Cdd:cd03468    97 PDGLLLDVT 105
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 626-651 4.58e-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: 4.58e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192732161 626 PSDIDPQVFYELPEAVQKELLAEWKR 651
Cdd:cd19318     9 FSQVDPSVLAALPPDLQEELEAAYAQ 34
 
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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