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Conserved domains on  [gi|1192727683|ref|NP_001338545|]
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DNA polymerase iota isoform f [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 ...
 39-316 1.00e-121

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: 365.64  E-value: 1.00e-121
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  39 GVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSP--VVERLGFDENFVDLT 116
Cdd:cd01703    26 GIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVYRLLRSYSWndRVERLGFDENFMDVT 105

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 117 EM-------VEKRLQQLQSDELSAVTVSG--------------HVYNNQC------------------------IGYKTA 151
Cdd:cd01703   106 EMrllvashIAYEMRERIENELGLTCCAGiasnkllaklvgsvNKPNQQTtllppscadlmdfmdlhdlrkipgIGYKTA 185

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 152 KCLEALGINSVRDLQTFSP---------------KILEKELGISVAQRIQKLSFGEDNSPVI-LSGPPQSFSEEDSFKKC 215
Cdd:cd01703   186 AKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEGIGQRIWKLLFGRDTSPVKpASDFPQQISIEDSYKKC 265

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 216 SSEV--EAKNKIEELLASLLNRVCQ--------DGRKPHTVRLIIRRYSSEKH-YGRESRQCPIPSHVIQKLGTGNYDVM 284
Cdd:cd01703   266 SLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLTLRRYTSTKKhYNRESKQAPIPSHVFQKLTGGNEIAA 345

                         330       340       350
                  ....*....|....*....|....*....|....
gi 1192727683 285 TPMVDILMKLFRNMVNVK--MPFHLTLLSVCFCN 316
Cdd:cd01703   346 RPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
Rev1_UBM2 super family cl41665
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 584-609 3.89e-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: 3.89e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192727683 584 PSDIDPQVFYELPEAVQKELLAEWKR 609
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. ...
 39-316 1.00e-121

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: 365.64  E-value: 1.00e-121
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  39 GVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSP--VVERLGFDENFVDLT 116
Cdd:cd01703    26 GIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVYRLLRSYSWndRVERLGFDENFMDVT 105

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 117 EM-------VEKRLQQLQSDELSAVTVSG--------------HVYNNQC------------------------IGYKTA 151
Cdd:cd01703   106 EMrllvashIAYEMRERIENELGLTCCAGiasnkllaklvgsvNKPNQQTtllppscadlmdfmdlhdlrkipgIGYKTA 185

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 152 KCLEALGINSVRDLQTFSP---------------KILEKELGISVAQRIQKLSFGEDNSPVI-LSGPPQSFSEEDSFKKC 215
Cdd:cd01703   186 AKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEGIGQRIWKLLFGRDTSPVKpASDFPQQISIEDSYKKC 265

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 216 SSEV--EAKNKIEELLASLLNRVCQ--------DGRKPHTVRLIIRRYSSEKH-YGRESRQCPIPSHVIQKLGTGNYDVM 284
Cdd:cd01703   266 SLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLTLRRYTSTKKhYNRESKQAPIPSHVFQKLTGGNEIAA 345

                         330       340       350
                  ....*....|....*....|....*....|....
gi 1192727683 285 TPMVDILMKLFRNMVNVK--MPFHLTLLSVCFCN 316
Cdd:cd01703   346 RPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 46-252 5.56e-37

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 140.66  E-value: 5.56e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMV------ 119
Cdd:COG0389    39 VAAASYEARAFGVRSGMPLFQARRLCPDLVVLPP-DFELYRDVSRRVMAILERYTPLVEPLSIDEAFLDVTGSArlfgsa 117

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 120 EKRLQQLQSD--ELSAVTVS-G--------------HVYNNQC---------------------IGYKTAKCLEALGINS 161
Cdd:COG0389   118 EAIARRIRRRirRETGLTVSvGiapnkflakiasdlAKPDGLTvippgevaaflaplpveklwgVGPKTAEKLARLGIRT 197

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 162 VRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSFKKcssEVEAKNKIEELLASLLNRVC---- 237
Cdd:COG0389   198 IGDLAALPRAELRRRFG-KVGERLYRLARGIDPRPVEPRRPRKSIGVERTFGE---DLTDLEELEAALRRLAERLAerlr 273

                         250
                  ....*....|....*
gi 1192727683 238 QDGRKPHTVRLIIRR 252
Cdd:COG0389   274 RQGLGARTVTVKLRT 288
PRK01810 PRK01810
DNA polymerase IV; Validated
 41-261 7.00e-26

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 110.12  E-value: 7.00e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  41 QQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLT---- 116
Cdd:PRK01810   40 ERKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRR-PNFDRYREASRQMFQILSEFTPLVQPVSIDEGYLDITdcya 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 117 --------EMVEKRLQQ-------------------------------LQSDELSAVTVSGHVYNNQCIGYKTAKCLEAL 157
Cdd:PRK01810  119 lgspleiaKMIQQRLLTelqlpcsigiapnkflakmasdmkkplgitvLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDI 198

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 158 GINSVRDLQTFSPKILEKELGISvAQRIQKLSFGEDNSPVilsgPPQSFSEEDS------FKKCSSEV-EAKNKIEELLA 230
Cdd:PRK01810  199 GIQTIGDLAKADEHILRAKLGIN-GVRLQRRANGIDDRPV----DPEAIYQFKSvgnsttLSHDMDEEkELLDVLRRLSK 273

                         250       260       270
                  ....*....|....*....|....*....|.
gi 1192727683 231 SLLNRVCQDGRKPHTVRLIIrRYSSEKHYGR 261
Cdd:PRK01810  274 SVSKRLQKKTVVSYNVQIMI-RYHDRRTITR 303
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 46-137 2.18e-23

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 96.49  E-value: 2.18e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVnGEDLTRYREMSYKVTELLEEFSPV-VERLGFDENFVDLTEMVE---- 120
Cdd:pfam00817  34 VAAASYEARKYGVRSGMPVFEAKKLCPNLIVV-PPDLELYRRASRKIFEILRRFSTPkVEQASIDEAFLDLTGLEKlfga 112

                          90       100
                  ....*....|....*....|..
gi 1192727683 121 -----KRLQQLQSDELSaVTVS 137
Cdd:pfam00817 113 eealaKRLRREIAEETG-LTCS 133
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 584-609 3.89e-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: 3.89e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192727683 584 PSDIDPQVFYELPEAVQKELLAEWKR 609
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. ...
 39-316 1.00e-121

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: 365.64  E-value: 1.00e-121
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  39 GVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSP--VVERLGFDENFVDLT 116
Cdd:cd01703    26 GIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEDLTPFRDMSKKVYRLLRSYSWndRVERLGFDENFMDVT 105

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 117 EM-------VEKRLQQLQSDELSAVTVSG--------------HVYNNQC------------------------IGYKTA 151
Cdd:cd01703   106 EMrllvashIAYEMRERIENELGLTCCAGiasnkllaklvgsvNKPNQQTtllppscadlmdfmdlhdlrkipgIGYKTA 185

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 152 KCLEALGINSVRDLQTFSP---------------KILEKELGISVAQRIQKLSFGEDNSPVI-LSGPPQSFSEEDSFKKC 215
Cdd:cd01703   186 AKLEAHGISSVRDLQEFSNrnrqtvgaapsllelLLMVKEFGEGIGQRIWKLLFGRDTSPVKpASDFPQQISIEDSYKKC 265

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 216 SSEV--EAKNKIEELLASLLNRVCQ--------DGRKPHTVRLIIRRYSSEKH-YGRESRQCPIPSHVIQKLGTGNYDVM 284
Cdd:cd01703   266 SLEEirEARNKIEELLASLLERMKQdlqevkagDGRRPHTLRLTLRRYTSTKKhYNRESKQAPIPSHVFQKLTGGNEIAA 345

                         330       340       350
                  ....*....|....*....|....*....|....
gi 1192727683 285 TPMVDILMKLFRNMVNVK--MPFHLTLLSVCFCN 316
Cdd:cd01703   346 RPIEKILMRLFRELVPPKnvKGFNLTLLNVCFTN 379
PolY cd00424
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 39-315 3.37e-76

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: 246.50  E-value: 3.37e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  39 GVQQKY----LVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVD 114
Cdd:cd00424    26 VVVPFNsdstCVIACSYEARKYGVKRGMPVREARKMCPNLILVP-ARLDLYRRLSERLLSELEEVAPLVEVASIDELFLD 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 115 LTEMVEK---------RLQQLQSDELSAVTVSGHVYNN---------------QC---------------------IGYK 149
Cdd:cd00424   105 LTGSARLlglgsevalRIKRHIAEQLGGITASIGIASNkllaklaakyakpdgLTildpedlpgflsklpltdlpgIGAV 184

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 150 TAKCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSFKKCSSEVE-AKNKIEEL 228
Cdd:cd00424   185 TAKRLEAVGINPIGDLLAASPDALLALWGGVSGERLWYALRGIDDEPLSPPRPRKSFSHERVLPRDSRNAEdARPLLRLL 264

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 229 LASLLNRVCQDGRKPHTVRLIIRRYSSE--KHYGRESRQCPIPSHViqklgtgnydVMTPMVDILMKLFRNMVNVKMPFH 306
Cdd:cd00424   265 LEKLARRLRRDGRGATRLRLWLRTVDGRwsGHADIPSRSAPRPIST----------EDGELLHALDKLWRALLDDKGPRR 334


                  ....*....
gi 1192727683 307 LTLLSVCFC 315
Cdd:cd00424   335 LRRLGVRLS 343
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 46-272 1.05e-37

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: 142.66  E-value: 1.05e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVE----- 120
Cdd:cd03586    36 VSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPP-RFDKYREVSRQIMEILREYTPLVEPLSIDEAYLDVTDYVRlfgsa 114

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 121 ----KRLQQLQSDELSaVTVSGHVYNN---------------QC---------------------IGYKTAKCLEALGIN 160
Cdd:cd03586   115 teiaKEIRARIREETG-LTASAGIAPNkflakiasdlnkpngLTvippedveeflaplpvrkipgVGKVTAEKLKELGIK 193

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 161 SVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSF-KKCSSEVEAKNKIEELLASLLNRVCQD 239
Cdd:cd03586   194 TIGDLAKLDVELLKKLFG-KSGRRLYELARGIDNRPVEPDRERKSIGVERTFsEDLTDPEELLEELLELAEELAERLRKR 272

                         250       260       270
                  ....*....|....*....|....*....|...
gi 1192727683 240 GRKPHTVRLIIRRYSSEKHygreSRQCPIPSHV 272
Cdd:cd03586   273 GLKGRTVTVKLKYADFSTR----TRSRTLPEPT 301
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 46-252 5.56e-37

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 140.66  E-value: 5.56e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMV------ 119
Cdd:COG0389    39 VAAASYEARAFGVRSGMPLFQARRLCPDLVVLPP-DFELYRDVSRRVMAILERYTPLVEPLSIDEAFLDVTGSArlfgsa 117

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 120 EKRLQQLQSD--ELSAVTVS-G--------------HVYNNQC---------------------IGYKTAKCLEALGINS 161
Cdd:COG0389   118 EAIARRIRRRirRETGLTVSvGiapnkflakiasdlAKPDGLTvippgevaaflaplpveklwgVGPKTAEKLARLGIRT 197

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 162 VRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSFKKcssEVEAKNKIEELLASLLNRVC---- 237
Cdd:COG0389   198 IGDLAALPRAELRRRFG-KVGERLYRLARGIDPRPVEPRRPRKSIGVERTFGE---DLTDLEELEAALRRLAERLAerlr 273

                         250
                  ....*....|....*
gi 1192727683 238 QDGRKPHTVRLIIRR 252
Cdd:COG0389   274 RQGLGARTVTVKLRT 288
PolY_Pol_eta cd01702
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ...
 50-316 1.92e-26

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: 111.25  E-value: 1.92e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  50 NYEARKLGVKKLMNVRDAKEKCPQLVLV------NGED----------------LTRYREMSYKVTELLEEFSPVVERLG 107
Cdd:cd01702    37 SYAARAFGVTRFMTIDEAKKKCPDLILAhvatykKGEDeadyhenpsparhkvsLDPYRRASRKILNILKRFGDVVEKAS 116

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 108 FDENFVDLTEMVEKRLQQLQSDELSAVTVSG--------------HVYNNQCI---------------------GYKTAK 152
Cdd:cd01702   117 IDEAYLDLGSRIVEEIRQQVYDELGYTCSAGiahnkmlaklasgmNKPNAQTIlrndavasflsslpitsirglGGKLGE 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 153 CL-EALGINSVRDLQTF--SPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSF--KKCSSEVEAKNKIEE 227
Cdd:cd01702   197 EIiDLLGLPTEGDVAGFrsSESDLQEHFGEKLGEWLYNLLRGIDHEPVKPRPLPKSMGSSKNFpgKTALSTEDVQHWLLV 276

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 228 LLASLLNRVCQD----GRKPHTVRLiirRYSSEKHYGRESRQCPIPSHVIQKLgtgnydvMTPMVDILMKLFRNMVNVKM 303
Cdd:cd01702   277 LASELNSRLEDDryenNRRPKTLVL---SLRQRGDGVRRSRSCALPRYDAQKI-------VKDAFKLIKAINEEGLGLAW 346

                         330
                  ....*....|...
gi 1192727683 304 PFHLTLLSVCFCN 316
Cdd:cd01702   347 NYPLTLLSLSFTK 359
PRK01810 PRK01810
DNA polymerase IV; Validated
 41-261 7.00e-26

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 110.12  E-value: 7.00e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  41 QQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLT---- 116
Cdd:PRK01810   40 ERKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRR-PNFDRYREASRQMFQILSEFTPLVQPVSIDEGYLDITdcya 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 117 --------EMVEKRLQQ-------------------------------LQSDELSAVTVSGHVYNNQCIGYKTAKCLEAL 157
Cdd:PRK01810  119 lgspleiaKMIQQRLLTelqlpcsigiapnkflakmasdmkkplgitvLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDI 198

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 158 GINSVRDLQTFSPKILEKELGISvAQRIQKLSFGEDNSPVilsgPPQSFSEEDS------FKKCSSEV-EAKNKIEELLA 230
Cdd:PRK01810  199 GIQTIGDLAKADEHILRAKLGIN-GVRLQRRANGIDDRPV----DPEAIYQFKSvgnsttLSHDMDEEkELLDVLRRLSK 273

                         250       260       270
                  ....*....|....*....|....*....|.
gi 1192727683 231 SLLNRVCQDGRKPHTVRLIIrRYSSEKHYGR 261
Cdd:PRK01810  274 SVSKRLQKKTVVSYNVQIMI-RYHDRRTITR 303
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 46-137 2.18e-23

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 96.49  E-value: 2.18e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVnGEDLTRYREMSYKVTELLEEFSPV-VERLGFDENFVDLTEMVE---- 120
Cdd:pfam00817  34 VAAASYEARKYGVRSGMPVFEAKKLCPNLIVV-PPDLELYRRASRKIFEILRRFSTPkVEQASIDEAFLDLTGLEKlfga 112

                          90       100
                  ....*....|....*....|..
gi 1192727683 121 -----KRLQQLQSDELSaVTVS 137
Cdd:pfam00817 113 eealaKRLRREIAEETG-LTCS 133
PRK02406 PRK02406
DNA polymerase IV; Validated
 31-246 1.58e-21

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 96.34  E-value: 1.58e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  31 VGAAASSQGVqqkylVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDE 110
Cdd:PRK02406   23 VGGSPGRRGV-----ISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPG-RFDVYKEVSRQIREIFRRYTDLIEPLSLDE 96

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 111 NFVDLTE---------MVEKRLQQLQSDELSaVTVSGHVYNN---------------QC--------------------- 145
Cdd:PRK02406   97 AYLDVTDnklcigsatLIAQEIRQDIFEELG-LTASAGVAPNkflakiasdwnkpngLFvitpeevdaflatlpvekipg 175

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 146 IGYKTAKCLEALGINSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSFKK-CSSEVEAKNK 224
Cdd:PRK02406  176 VGKVTAEKLHALGIYTCADLQKYDLAELIRHFG-KFGRRLYERARGIDERPVKPDRERKSVGVERTFAEdLYDLEACLAE 254

                         250       260
                  ....*....|....*....|....*
gi 1192727683 225 IEEL---LASLLNRVcQDGRKPHTV 246
Cdd:PRK02406  255 LPRLaekLERRLERA-KPDKRIKTV 278
PolY_Pol_V_umuC cd01700
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ...
 43-276 6.98e-16

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: 79.13  E-value: 6.98e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  43 KYLVV-----TC----NYEARKLGVKKLMNVRDAKEKCPQL-VLVNGEDLTRYREMSYKVTELLEEFSPVVERLGFDENF 112
Cdd:cd01700    23 RPLVVlsnndGCviarSPEAKALGIKMGSPYFKVPDLLERHgVAVFSSNYALYGDMSRRIMSILERFSPDVEVYSIDESF 102

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 113 VDLTEM--------VEKRLQQLQSDELS-AVTV---------------------SGHV----YNNQC------------- 145
Cdd:cd01700   103 LDLTGSlrfgdleeLARKIRRRILQETGiPVTVgigptktlaklandlakkknpYGGVvdltDEEVRdkllkilpvgdvw 182

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 146 -IGYKTAKCLEALGINSVRDLQTFSPKILEKELGIsVAQRIQKLSFGEDNSPVILSGPP-QSFSEEDSFKKcssEVEAKN 223
Cdd:cd01700   183 gIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKFGV-VGERLVRELNGIDCLPLEEYPPPkKSIGSSRSFGR---DVTDLD 258

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1192727683 224 KIEELLASLLNRVC----QDGRKPHTVRLIIR--RYSSEKHYGRESRQCPIPSHVIQKL 276
Cdd:cd01700   259 ELKQALAEYAERAAeklrRQKSVARTISVFIGtsGFSRQPKYYSATNTLPYPTNDTREI 317
PRK03352 PRK03352
DNA polymerase IV; Validated
 46-251 7.83e-16

DNA polymerase IV; Validated


Pssm-ID: 179564 [Multi-domain]  Cd Length: 346  Bit Score: 79.30  E-value: 7.83e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  46 VVTC-NYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLT----EMVE 120
Cdd:PRK03352   46 VVTCaSYEARAFGVRAGMPLRTAARRCPDAVFLP-SDPAAYDAASEEVMATLRDLGVPVEVWGWDEAFLGVDtddpEALA 124

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 121 KRLQQLQSDE-------------LSAVTVSGH-----VY----NNQC-------------IGYKTAKCLEALGINSVRDL 165
Cdd:PRK03352  125 EEIRAAVLERtglscsvgigdnkLRAKIATGFakpagVFrltdANWMavmgdrptdalwgVGPKTAKRLAALGITTVADL 204

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 166 QTFSPKILEKELGISVAQRIQKLSFGEDNSPVIlSGP--PQSFSEEDSFKK---CSSEVEAknKIEELLASLLNRVCQDG 240
Cdd:PRK03352  205 AAADPAELAATFGPTTGPWLLLLARGGGDTEVS-AEPwvPRSRSREVTFPQdltDRAEVES--AVRELARRVLDEVVAEG 281

                         250
                  ....*....|.
gi 1192727683 241 RKPHTVRLIIR 251
Cdd:PRK03352  282 RPVTRVAVKVR 292
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
 49-252 8.71e-15

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: 76.58  E-value: 8.71e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  49 CNYEARKLGVKKLMNVRDAKEKCPQLVLVnGEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKR---LQQ 125
Cdd:cd01701    89 CNYEARSYGIKNGMWVGQAKKLCPQLVTL-PYDFEAYEEVSLTFYEILASYTDNIEAVSCDEALIDITSLLEETyelPEE 167

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 126 LQS---DELSAVT-------VSGHVY-----------NNQC---------------------IGYKTA-KCLEALG-INS 161
Cdd:cd01701   168 LAEairNEIRETTgcsasvgIGPNILlarlatrkakpDGQYhlsaekveeflsqlkvgdlpgVGSSLAeKLVKLFGdTCG 247

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 162 VRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQSFSEEDS----FKKcssEVEAKNKIEELLASLLNRVC 237
Cdd:cd01701   248 GLELRSKTKEKLQKVLGPKTGEKLYDYCRGIDDRPVTGEKERKSVSAEINygirFTN---VDDVEQFLQRLSEELSKRLE 324

                         250
                  ....*....|....*.
gi 1192727683 238 QDGRKPHTVRL-IIRR 252
Cdd:cd01701   325 ESNVTGRQITLkLMKR 340
PRK14133 PRK14133
DNA polymerase IV; Provisional
 39-258 1.64e-14

DNA polymerase IV; Provisional


Pssm-ID: 184529 [Multi-domain]  Cd Length: 347  Bit Score: 75.14  E-value: 1.64e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  39 GVQQKYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEdLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEM 118
Cdd:PRK14133   34 GISERGVVSTCSYEARKYGVHSAMPVFMAKKRCPHGIFLPVR-HERYKEVSKNIFKILYEVTPIVEPVSIDEAYLDITNI 112

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 119 VE----------------------------KRLQQLQSDE-----------------LSAVTVSgHVYNnqcIGYKTAKC 153
Cdd:PRK14133  113 KEepikiakyikkkvkketgltlsvgisynKFLAKLASDWnkpdgikiitedmipdiLKPLPIS-KVHG---IGKKSVEK 188

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 154 LEALGINSVRDLQTFSPKILEK---ELGISVAQRIQklsfGEDNSPVILSGPPQSFSEEDSFKKcssEVEAKNKIEELLA 230
Cdd:PRK14133  189 LNNIGIYTIEDLLKLSREFLIEyfgKFGVEIYERIR----GIDYREVEVSRERKSIGKETTLKK---DTKDKEELKKYLK 261

                         250       260       270
                  ....*....|....*....|....*....|..
gi 1192727683 231 SLLNRVCQDGRKPH----TVRLIIRRYSSEKH 258
Cdd:PRK14133  262 DFSNIISEELKKRNlygkTVTVKIKTSDFQTH 293
PRK03348 PRK03348
DNA polymerase IV; Provisional
 46-253 2.16e-14

DNA polymerase IV; Provisional


Pssm-ID: 235118 [Multi-domain]  Cd Length: 454  Bit Score: 75.74  E-value: 2.16e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEM------- 118
Cdd:PRK03348   43 VAGASYEARVFGARSAMPMHQARRLVGNGAVVLPPRFVVYRAASRRVFDTLRELSPVVEQLSFDEAFVEPAELagasaee 122

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 119 VEKRLQQLQS---------------------------------------------DELSAVTVSGhvynnqcIGYKTAKC 153
Cdd:PRK03348  123 VEAFAERLRArvreetglpasvgagsgkqiakiasglakpdgirvvppgeerellAPLPVRRLWG-------IGPVTEEK 195

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 154 LEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSFKK-CSSEVEAKNKIEELLASL 232
Cdd:PRK03348  196 LHRLGIETIGDLAALSEAEVANLLGATVGPALHRLARGIDDRPVAERAEAKQISAESTFAVdLTTRAQLREAIERIAEHA 275

                         250       260
                  ....*....|....*....|.
gi 1192727683 233 LNRVCQDGRKPHTVRLIIRRY 253
Cdd:PRK03348  276 HRRLLKDGRGARTVTVKLRKS 296
PRK02794 PRK02794
DNA polymerase IV; Provisional
 46-212 3.32e-14

DNA polymerase IV; Provisional


Pssm-ID: 179473 [Multi-domain]  Cd Length: 419  Bit Score: 74.97  E-value: 3.32e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGeDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDL--TEMVEK-- 121
Cdd:PRK02794   73 VSTACYIARIHGVRSAMPMFKALKLCPDAVVIKP-DMEKYVRVGREVRAMMQALTPLVEPLSIDEAFLDLsgTERLHGap 151

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 122 ------RLQQLQSDELsAVTVS-GHVYNN-----------------------------------QCIGYKTAKCLEALGI 159
Cdd:PRK02794  152 pavvlaRFARRVEREI-GITVSvGLSYNKflakiasdldkprgfsvigraealaflapkpvgiiWGVGPATAARLARDGI 230

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1192727683 160 NSVRDLQTFSPKILEKELGiSVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSF 212
Cdd:PRK02794  231 RTIGDLQRADEADLMRRFG-SMGLRLWRLARGIDDRKVSPDREAKSVSAETTF 282
PRK03103 PRK03103
DNA polymerase IV; Reviewed
 51-271 1.43e-11

DNA polymerase IV; Reviewed


Pssm-ID: 235104 [Multi-domain]  Cd Length: 409  Bit Score: 66.56  E-value: 1.43e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  51 YEARKLGVKKLMNVRDAKEKCPQLVLVNGEdLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLT---------EMVEK 121
Cdd:PRK03103   48 PLAKAYGVKTAERLWEAQQKCPDLVVVKPR-MQRYIDVSLQITRILEDFTDLVEPFSIDEQFLDVTgsqklfgspLEIAQ 126

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 122 RLQQ--------------------------------------LQSDELSAVTVSGHVYNNQCIGYKTAKCLEALGINSVR 163
Cdd:PRK03103  127 KIQQrimretgvyarvgigpnkllakmacdnfakknpdglftLDKEDVPADLWPLPVRKLFGVGSRMEKHLRRMGIRTIG 206

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 164 DLQTFSPKILEKELGIsVAQRIQKLSFGEDNSPVilsgPPQSFSEEDSFKKCSS---EVEAKNKIEELLASLLNRVCQDG 240
Cdd:PRK03103  207 QLANTPLERLKKRWGI-NGEVLWRTANGIDYSPV----TPHSLDRQKAIGHQMTlprDYRGFEEIKVVLLELCEEVCRRA 281

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 1192727683 241 RKPH----TVRLIIRrySSEKHYGRE-SRQCPIPSH 271
Cdd:PRK03103  282 RAKGymgrTVSVSLR--GADFDWPTGfSRQMTLPEP 315
PRK03858 PRK03858
DNA polymerase IV; Validated
 46-114 1.76e-10

DNA polymerase IV; Validated


Pssm-ID: 179663 [Multi-domain]  Cd Length: 396  Bit Score: 63.08  E-value: 1.76e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1192727683  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEdLTRYREMSYKVTELLEEFSPVVERLGFDENFVD 114
Cdd:PRK03858   38 VLAASYEAKAYGVRTAMGGRQARRLCPQAVVVPPR-MSAYSRASKAVFEVFRDTTPLVEGLSIDEAFLD 105
PRK01216 PRK01216
DNA polymerase IV; Validated
 46-197 4.54e-09

DNA polymerase IV; Validated


Pssm-ID: 179251 [Multi-domain]  Cd Length: 351  Bit Score: 58.65  E-value: 4.54e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683  46 VVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTrYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVE----- 120
Cdd:PRK01216   43 VATANYEARKLGIKAGMPIVEAKKILPNAVYLPMRKEV-YQQVSNRIMKLLREYSEKIEIASIDEAYLDISDKVKnyqda 121

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 121 -----KRLQQLQSDELSAVTVS--------------------GHVYNNQC--------------IGYKTAKCLEALGINS 161
Cdd:PRK01216  122 ynlglEIKNKILEKEKITVTVGisknkvfakiaadmakpngiKVIDDEEVkrfineldiadipgIGDITAEKLKKLGVNK 201

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 1192727683 162 VRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPV 197
Cdd:PRK01216  202 LVDTLRIEFDELKGIIGEAKAKYLFSLARNEYNEPV 237
IMS_C pfam11799
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
 203-317 1.13e-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: 1.13e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1192727683 203 PQSFSEEDSF-KKCSSEVEAKNKIEELLASLLNRVCQDGRKPHTVRLIIRRYssekHYGRESRQCPIPSHviqklgTGNY 281
Cdd:pfam11799   1 RKSIGAERTFgRDLTDLEELREALLELAEELAERLRRQGLVARTVTVKIRYS----DFRTITRSVTLPSP------TDDT 70

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1192727683 282 DVMTpmvDILMKLFRNMVNvkmPFHLTLLSVCFCNL 317
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 ...
 41-116 6.95e-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: 45.45  E-value: 6.95e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1192727683  41 QQKYLVVT-CNYEARKLGVKKLMNVRDAKEKCPQLVLVNgEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLT 116
Cdd:cd03468    30 RKKAGRILaCNAAARAAGVRPGMPLAEALALCPNLQVVE-YDPEADARALQELALWLLRFTPLVALDGPDGLLLDVT 105
umuC PRK03609
translesion error-prone DNA polymerase V subunit UmuC;
46-116 1.09e-04

translesion error-prone DNA polymerase V subunit UmuC;


Pssm-ID: 179607 [Multi-domain]  Cd Length: 422  Bit Score: 45.14  E-value: 1.09e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1192727683  46 VVTCNYEARKLGVK---KLMNVRDAKEKCPQLVLVNGEDLtrYREMSYKVTELLEEFSPVVERLGFDENFVDLT 116
Cdd:PRK03609   37 VIARSAEAKALGIKmgdPWFKQKDLFRRCGVVCFSSNYEL--YADMSNRVMSTLEELSPRVEIYSIDEAFCDLT 108
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 584-609 3.89e-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: 3.89e-03
                          10        20
                  ....*....|....*....|....*.
gi 1192727683 584 PSDIDPQVFYELPEAVQKELLAEWKR 609
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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