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Conserved domains on  [gi|672064902|ref|XP_008765252|]
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DNA repair protein REV1 isoform X5 [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
 131-607 0e+00

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: 609.31  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  131 FISDFYSRSRLHHISTWKCELTEFVSALQRQRSGVFPgreklkkvktgrsslvvtdtgdmSVLSSPRPQSCVMHVDMDCF 210
Cdd:cd01701     1 FLENFFKHSRLHHISTWKARLKDFFRELSNGSKEADP-----------------------SNSIHPDLQRIIMHVDFDCF 57

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  211 FVSVGIRNRPDLKGKPVAVTSNRGTgraplrpganpqlewqyyqnkllkgkaadipdssvwenqdsaqtngidsvlsKAE 290
Cdd:cd01701    58 FVSVSIRNRPDLKGKPVAVCHGKGP----------------------------------------------------NSE 85

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  291 IASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALIDVTDILAETKLSP 370
Cdd:cd01701    86 IASCNYEARSYGIKNGMWVGQAKKLCPQLVTLPYDFEAYEEVSLTFYEILASYTDNIEAVSCDEALIDITSLLEETYELP 165

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  371 EEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSMESKLASLGIKT 450
Cdd:cd01701   166 EELAEAIRNEIRETTGCSASVGIGPNILLARLATRKAKPDGQYHLSAEKVEEFLSQLKVGDLPGVGSSLAEKLVKLFGDT 245

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  451 CGD--LQCLTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPREAEAFLLSLSGEIQSRLEA 528
Cdd:cd01701   246 CGGleLRSKTKEKLQKVLGPKTGEKLYDYCRGIDDRPVTGEKERKSVSAEINYGIRFTNVDDVEQFLQRLSEELSKRLEE 325

                         410       420       430       440       450       460       470
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 672064902  529 AGMKGKRLTLKIMVRKPGAPIETAKFGGHGICDNIARTVTLDQATDSAKIIGKATLNMFHTMKLNISDMRGVGIQVHQL 607
Cdd:cd01701   326 SNVTGRQITLKLMKRAPGAPIEPPKYMGHGICDSFSKSSTLGVATDDSGVIGTEAKKLFRDLSIPPEELRGVGIQVTKL 404
Rev1_C cd12145
C-terminal domain of the Y-family polymerase Rev1; Rev1 is a eukaryotic translesion synthesis ...
 925-1018 4.94e-42

C-terminal domain of the Y-family polymerase Rev1; Rev1 is a eukaryotic translesion synthesis (TLS) polymerase; TLS 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. The C-terminal domain modeled here is essential for TLS and has been shown to mediate interactions with the Rev7 subunit of the B-family TLS polymerase Pol zeta (Rev3/Rev7), as well as with the RIRs (Rev1-interacting regions) of polymerases kappa, iota, and eta. Rev1 is known to actively promote the introduction of mutations, potentially making it a significant target for cancer treatment.


:

Pssm-ID: 213388  Cd Length: 94  Bit Score: 148.57  E-value: 4.94e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  925 PNLAGAVEFSDVKTLLKEWITTISDPMEEDILQVVKYCTDLIEEKDLEKLDLVIKYMKRLMQQSVESVWNMAFDFILDNV 1004
Cdd:cd12145     1 PTLSGATSLEEVKTLLKEWITSTPGPNEEDVELFVKYLSRLIDEKNLEKVDLLLKYLKRLVQQSGNSTWEEAYDRIIDVV 80

                          90
                  ....*....|....
gi 672064902 1005 QVVLQQTYGSTLKV 1018
Cdd:cd12145    81 QNRVKQTYGSPLKI 94
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 789-824 2.44e-15

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: 70.33  E-value: 2.44e-15
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 672064902  789 ISVIALPAFSQVDPDVFAALPAELQKELKAAYDQRQ 824
Cdd:cd19318     1 GPIIALPSFSQVDPSVLAALPPDLQEELEAAYAQRQ 36
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 712-745 3.40e-14

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: 67.25  E-value: 3.40e-14
                          10        20        30
                  ....*....|....*....|....*....|....
gi 672064902  712 SIEVPSPSQIDQSVLEALPPDIREQVEQAYAAQQ 745
Cdd:cd19318     3 IIALPSFSQVDPSVLAALPPDLQEELEAAYAQRQ 36
 
Name Accession Description Interval E-value
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
 131-607 0e+00

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: 609.31  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  131 FISDFYSRSRLHHISTWKCELTEFVSALQRQRSGVFPgreklkkvktgrsslvvtdtgdmSVLSSPRPQSCVMHVDMDCF 210
Cdd:cd01701     1 FLENFFKHSRLHHISTWKARLKDFFRELSNGSKEADP-----------------------SNSIHPDLQRIIMHVDFDCF 57

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  211 FVSVGIRNRPDLKGKPVAVTSNRGTgraplrpganpqlewqyyqnkllkgkaadipdssvwenqdsaqtngidsvlsKAE 290
Cdd:cd01701    58 FVSVSIRNRPDLKGKPVAVCHGKGP----------------------------------------------------NSE 85

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  291 IASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALIDVTDILAETKLSP 370
Cdd:cd01701    86 IASCNYEARSYGIKNGMWVGQAKKLCPQLVTLPYDFEAYEEVSLTFYEILASYTDNIEAVSCDEALIDITSLLEETYELP 165

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  371 EEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSMESKLASLGIKT 450
Cdd:cd01701   166 EELAEAIRNEIRETTGCSASVGIGPNILLARLATRKAKPDGQYHLSAEKVEEFLSQLKVGDLPGVGSSLAEKLVKLFGDT 245

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  451 CGD--LQCLTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPREAEAFLLSLSGEIQSRLEA 528
Cdd:cd01701   246 CGGleLRSKTKEKLQKVLGPKTGEKLYDYCRGIDDRPVTGEKERKSVSAEINYGIRFTNVDDVEQFLQRLSEELSKRLEE 325

                         410       420       430       440       450       460       470
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 672064902  529 AGMKGKRLTLKIMVRKPGAPIETAKFGGHGICDNIARTVTLDQATDSAKIIGKATLNMFHTMKLNISDMRGVGIQVHQL 607
Cdd:cd01701   326 SNVTGRQITLKLMKRAPGAPIEPPKYMGHGICDSFSKSSTLGVATDDSGVIGTEAKKLFRDLSIPPEELRGVGIQVTKL 404
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 202-605 3.26e-89

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 288.97  E-value: 3.26e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  202 VMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRaplrpganpqlewqyyqnkllkgkaadipdssvwenqdsaqtng 281
Cdd:COG0389     3 ILHVDMDAFYASVEQRDRPELRGKPVAVGGDNNRGV-------------------------------------------- 38

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  282 idsvlskaeIASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALIDVTD 361
Cdd:COG0389    39 ---------VAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRDVSRRVMAILERYTPLVEPLSIDEAFLDVTG 109

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  362 ILAETKlSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSMES 441
Cdd:COG0389   110 SARLFG-SAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGLTVIPPGEVAAFLAPLPVEKLWGVGPKTAE 188

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  442 KLASLGIKTCGDLQCLTMAKLQKEFGpKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPREAEAFLLSLSGE 521
Cdd:COG0389   189 KLARLGIRTIGDLAALPRAELRRRFG-KVGERLYRLARGIDPRPVEPRRPRKSIGVERTFGEDLTDLEELEAALRRLAER 267

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  522 IQSRLEAAGMKGKRLTLKimvrkpgapIETAKFgghgicDNIARTVTLDQATDSAKIIGKATLNMFHTMKLNISDMRGVG 601
Cdd:COG0389   268 LAERLRRQGLGARTVTVK---------LRTSDF------RTTTRSRTLPEPTDDTAELLRAARELLERIYRPGRPVRLLG 332


                  ....
gi 672064902  602 IQVH 605
Cdd:COG0389   333 VRLS 336
PRK02406 PRK02406
DNA polymerase IV; Validated
 207-540 1.04e-71

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 241.56  E-value: 1.04e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  207 MDCFFVSVGIRNRPDLKGKPVAVtsnrGtGRAPLRpganpqlewqyyqnkllkgkaadipdssvwenqdsaqtngidSVl 286
Cdd:PRK02406    1 MDCFYAAVEMRDNPELRGKPVAV----G-GSPGRR------------------------------------------GV- 32

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  287 skaeIASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALIDVTDILAEt 366
Cdd:PRK02406   33 ----ISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIREIFRRYTDLIEPLSLDEAYLDVTDNKLC- 107

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  367 KLSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSMESKLASL 446
Cdd:PRK02406  108 IGSATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPEEVDAFLATLPVEKIPGVGKVTAEKLHAL 187

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  447 GIKTCGDLQCLTMAKLQKEFGpKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPREAEAFLLSLSGEIQSRL 526
Cdd:PRK02406  188 GIYTCADLQKYDLAELIRHFG-KFGRRLYERARGIDERPVKPDRERKSVGVERTFAEDLYDLEACLAELPRLAEKLERRL 266

                         330
                  ....*....|....*.
gi 672064902  527 EAAGM--KGKRLTLKI 540
Cdd:PRK02406  267 ERAKPdkRIKTVGVKL 282
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 205-405 1.56e-44

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 157.74  E-value: 1.56e-44
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902   205 VDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRaplrpganpqlewqyyqnkllkgkaadipdssvwenqdsaqtngids 284
Cdd:pfam00817    1 IDMDAFFASVELLRDPELKGKPVAVGGGNGRGI----------------------------------------------- 33

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902   285 vlskaeIASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASY-THSIEAVSCDEALIDVTDiL 363
Cdd:pfam00817   34 ------VAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKIFEILRRFsTPKVEQASIDEAFLDLTG-L 106

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|..
gi 672064902   364 AETKLSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATK 405
Cdd:pfam00817  107 EKLFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLASD 148
Rev1_C cd12145
C-terminal domain of the Y-family polymerase Rev1; Rev1 is a eukaryotic translesion synthesis ...
 925-1018 4.94e-42

C-terminal domain of the Y-family polymerase Rev1; Rev1 is a eukaryotic translesion synthesis (TLS) polymerase; TLS 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. The C-terminal domain modeled here is essential for TLS and has been shown to mediate interactions with the Rev7 subunit of the B-family TLS polymerase Pol zeta (Rev3/Rev7), as well as with the RIRs (Rev1-interacting regions) of polymerases kappa, iota, and eta. Rev1 is known to actively promote the introduction of mutations, potentially making it a significant target for cancer treatment.


Pssm-ID: 213388  Cd Length: 94  Bit Score: 148.57  E-value: 4.94e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  925 PNLAGAVEFSDVKTLLKEWITTISDPMEEDILQVVKYCTDLIEEKDLEKLDLVIKYMKRLMQQSVESVWNMAFDFILDNV 1004
Cdd:cd12145     1 PTLSGATSLEEVKTLLKEWITSTPGPNEEDVELFVKYLSRLIDEKNLEKVDLLLKYLKRLVQQSGNSTWEEAYDRIIDVV 80

                          90
                  ....*....|....
gi 672064902 1005 QVVLQQTYGSTLKV 1018
Cdd:cd12145    81 QNRVKQTYGSPLKI 94
REV1_C pfam16727
DNA repair protein REV1 C-terminal domain; This is the C-terminal domain of DNA repair protein ...
 935-1016 5.18e-17

DNA repair protein REV1 C-terminal domain; This is the C-terminal domain of DNA repair protein REV1. It interacts with REV7, POLN, POLK and POLI.


Pssm-ID: 465248  Cd Length: 91  Bit Score: 76.89  E-value: 5.18e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902   935 DVKTLLKEWITTISD--PMEEDILQVVKYCTDLI-EEKDLEKLDLVIKYMKRLMQQS------VESVWNMAFDFILDNVQ 1005
Cdd:pfam16727    1 DVRDLLEAWVESFRDegPHEEDVEALAKYLVRVVlEERDLEKAVAVLKWLRWLVEEEggggeeGGEAWWKAFREVKEAVQ 80

                           90
                   ....*....|.
gi 672064902  1006 VVLQQTYGSTL 1016
Cdd:pfam16727   81 EAVRERGGGPL 91
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 789-824 2.44e-15

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: 70.33  E-value: 2.44e-15
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 672064902  789 ISVIALPAFSQVDPDVFAALPAELQKELKAAYDQRQ 824
Cdd:cd19318     1 GPIIALPSFSQVDPSVLAALPPDLQEELEAAYAQRQ 36
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 712-745 3.40e-14

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: 67.25  E-value: 3.40e-14
                          10        20        30
                  ....*....|....*....|....*....|....
gi 672064902  712 SIEVPSPSQIDQSVLEALPPDIREQVEQAYAAQQ 745
Cdd:cd19318     3 IIALPSFSQVDPSVLAALPPDLQEELEAAYAQRQ 36
UBM pfam14377
Ubiquitin binding region; This family contains repetitive element (RE) from a subgroup of HECT ...
 716-745 6.73e-04

Ubiquitin binding region; This family contains repetitive element (RE) from a subgroup of HECT E3 ubiquitin ligases and the Y-family translesion polymerases, including human HUWE1 and Arabidopsis UPL1. Each of these repetitive elements are approximately 20 amino acids in length and contain two predicted helical segments separated by a Leu-Pro motif. The REs from the Y-family polymerases were shown to bind ubiquitin and were the basis for a novel ubiquitin-binding domain called the ubiquitin-binding motif (UBM).


Pssm-ID: 464159 [Multi-domain]  Cd Length: 34  Bit Score: 37.87  E-value: 6.73e-04
                           10        20        30
                   ....*....|....*....|....*....|
gi 672064902   716 PSPSQIDQSVLEALPPDIREQVEQAYAAQQ 745
Cdd:pfam14377    3 PPPEGIDPSFLAALPPDLRQEVLAQQDDER 32
 
Name Accession Description Interval E-value
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
 131-607 0e+00

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: 609.31  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  131 FISDFYSRSRLHHISTWKCELTEFVSALQRQRSGVFPgreklkkvktgrsslvvtdtgdmSVLSSPRPQSCVMHVDMDCF 210
Cdd:cd01701     1 FLENFFKHSRLHHISTWKARLKDFFRELSNGSKEADP-----------------------SNSIHPDLQRIIMHVDFDCF 57

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  211 FVSVGIRNRPDLKGKPVAVTSNRGTgraplrpganpqlewqyyqnkllkgkaadipdssvwenqdsaqtngidsvlsKAE 290
Cdd:cd01701    58 FVSVSIRNRPDLKGKPVAVCHGKGP----------------------------------------------------NSE 85

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  291 IASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALIDVTDILAETKLSP 370
Cdd:cd01701    86 IASCNYEARSYGIKNGMWVGQAKKLCPQLVTLPYDFEAYEEVSLTFYEILASYTDNIEAVSCDEALIDITSLLEETYELP 165

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  371 EEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSMESKLASLGIKT 450
Cdd:cd01701   166 EELAEAIRNEIRETTGCSASVGIGPNILLARLATRKAKPDGQYHLSAEKVEEFLSQLKVGDLPGVGSSLAEKLVKLFGDT 245

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  451 CGD--LQCLTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPREAEAFLLSLSGEIQSRLEA 528
Cdd:cd01701   246 CGGleLRSKTKEKLQKVLGPKTGEKLYDYCRGIDDRPVTGEKERKSVSAEINYGIRFTNVDDVEQFLQRLSEELSKRLEE 325

                         410       420       430       440       450       460       470
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 672064902  529 AGMKGKRLTLKIMVRKPGAPIETAKFGGHGICDNIARTVTLDQATDSAKIIGKATLNMFHTMKLNISDMRGVGIQVHQL 607
Cdd:cd01701   326 SNVTGRQITLKLMKRAPGAPIEPPKYMGHGICDSFSKSSTLGVATDDSGVIGTEAKKLFRDLSIPPEELRGVGIQVTKL 404
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 203-607 7.14e-93

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: 298.67  E-value: 7.14e-93
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  203 MHVDMDCFFVSVGIRNRPDLKGKPVAVTSNrgtgraplrpganpqlewqyyqnkllkgkaadiPDSSVwenqdsaqtngi 282
Cdd:cd03586     1 IHIDMDAFYASVEQRDNPELKGKPVAVGGS---------------------------------SDRGV------------ 35

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  283 dsvlskaeIASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALIDVTDI 362
Cdd:cd03586    36 --------VSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSRQIMEILREYTPLVEPLSIDEAYLDVTDY 107

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  363 LAETKlSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSMESK 442
Cdd:cd03586   108 VRLFG-SATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVIPPEDVEEFLAPLPVRKIPGVGKVTAEK 186

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  443 LASLGIKTCGDLQCLTMAKLQKEFGpKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPREAEAFLLSLSGEI 522
Cdd:cd03586   187 LKELGIKTIGDLAKLDVELLKKLFG-KSGRRLYELARGIDNRPVEPDRERKSIGVERTFSEDLTDPEELLEELLELAEEL 265

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  523 QSRLEAAGMKGKRLTLKImvrkpgapietaKFGGHgicDNIARTVTLDQATDSAKIIGKATLNMFHTMKLNISdMRGVGI 602
Cdd:cd03586   266 AERLRKRGLKGRTVTVKL------------KYADF---STRTRSRTLPEPTDDAEDIYELALELLEELLDGRP-IRLLGV 329


                  ....*
gi 672064902  603 QVHQL 607
Cdd:cd03586   330 RLSGL 334
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 202-605 3.26e-89

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 288.97  E-value: 3.26e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  202 VMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRaplrpganpqlewqyyqnkllkgkaadipdssvwenqdsaqtng 281
Cdd:COG0389     3 ILHVDMDAFYASVEQRDRPELRGKPVAVGGDNNRGV-------------------------------------------- 38

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  282 idsvlskaeIASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALIDVTD 361
Cdd:COG0389    39 ---------VAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRDVSRRVMAILERYTPLVEPLSIDEAFLDVTG 109

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  362 ILAETKlSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSMES 441
Cdd:COG0389   110 SARLFG-SAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGLTVIPPGEVAAFLAPLPVEKLWGVGPKTAE 188

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  442 KLASLGIKTCGDLQCLTMAKLQKEFGpKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPREAEAFLLSLSGE 521
Cdd:COG0389   189 KLARLGIRTIGDLAALPRAELRRRFG-KVGERLYRLARGIDPRPVEPRRPRKSIGVERTFGEDLTDLEELEAALRRLAER 267

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  522 IQSRLEAAGMKGKRLTLKimvrkpgapIETAKFgghgicDNIARTVTLDQATDSAKIIGKATLNMFHTMKLNISDMRGVG 601
Cdd:COG0389   268 LAERLRRQGLGARTVTVK---------LRTSDF------RTTTRSRTLPEPTDDTAELLRAARELLERIYRPGRPVRLLG 332


                  ....
gi 672064902  602 IQVH 605
Cdd:COG0389   333 VRLS 336
PRK02406 PRK02406
DNA polymerase IV; Validated
 207-540 1.04e-71

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 241.56  E-value: 1.04e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  207 MDCFFVSVGIRNRPDLKGKPVAVtsnrGtGRAPLRpganpqlewqyyqnkllkgkaadipdssvwenqdsaqtngidSVl 286
Cdd:PRK02406    1 MDCFYAAVEMRDNPELRGKPVAV----G-GSPGRR------------------------------------------GV- 32

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  287 skaeIASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALIDVTDILAEt 366
Cdd:PRK02406   33 ----ISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIREIFRRYTDLIEPLSLDEAYLDVTDNKLC- 107

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  367 KLSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSMESKLASL 446
Cdd:PRK02406  108 IGSATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPEEVDAFLATLPVEKIPGVGKVTAEKLHAL 187

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  447 GIKTCGDLQCLTMAKLQKEFGpKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPREAEAFLLSLSGEIQSRL 526
Cdd:PRK02406  188 GIYTCADLQKYDLAELIRHFG-KFGRRLYERARGIDERPVKPDRERKSVGVERTFAEDLYDLEACLAELPRLAEKLERRL 266

                         330
                  ....*....|....*.
gi 672064902  527 EAAGM--KGKRLTLKI 540
Cdd:PRK02406  267 ERAKPdkRIKTVGVKL 282
PRK03348 PRK03348
DNA polymerase IV; Provisional
 197-579 3.15e-53

DNA polymerase IV; Provisional


Pssm-ID: 235118 [Multi-domain]  Cd Length: 454  Bit Score: 193.23  E-value: 3.15e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  197 RPQSCVMHVDMDCFFVSVGIRNRPDLKGKPVAV--TSNRGTgraplrpganpqlewqyyqnkllkgkaadipdssvwenq 274
Cdd:PRK03348    2 RAQRWVLHLDMDAFFASVEQLTRPTLRGRPVLVggLGGRGV--------------------------------------- 42

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  275 dsaqtngidsvlskaeIASCSYEARQVGIKNGMFFGHAKQLCPNLQAV-PYDFHACREVAQALYETLASYTHSIEAVSCD 353
Cdd:PRK03348   43 ----------------VAGASYEARVFGARSAMPMHQARRLVGNGAVVlPPRFVVYRAASRRVFDTLRELSPVVEQLSFD 106

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  354 EALIDVTDILAETKLSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLP 433
Cdd:PRK03348  107 EAFVEPAELAGASAEEVEAFAERLRARVREETGLPASVGAGSGKQIAKIASGLAKPDGIRVVPPGEERELLAPLPVRRLW 186

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  434 GVGRSMESKLASLGIKTCGDLQCLTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPREAEA 513
Cdd:PRK03348  187 GIGPVTEEKLHRLGIETIGDLAALSEAEVANLLGATVGPALHRLARGIDDRPVAERAEAKQISAESTFAVDLTTRAQLRE 266

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 672064902  514 FLLSLSGEIQSRLEAAGMKGKRLTLKimVRKPGAPIETakfgghgicdniaRTVTLDQATDSAKII 579
Cdd:PRK03348  267 AIERIAEHAHRRLLKDGRGARTVTVK--LRKSDFSTLT-------------RSATLPYATDDAAVL 317
PolY cd00424
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 204-538 5.30e-52

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: 186.41  E-value: 5.30e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  204 HVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGtgraplrpganpqlewqyyqnkllkgkaadipdssvwenqdsaqtngid 283
Cdd:cd00424     2 HIDFDNFFASVEQLARPELKGRPVVVVPFNS------------------------------------------------- 32

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  284 svlSKAEIASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALIDVTDIl 363
Cdd:cd00424    33 ---DSTCVIACSYEARKYGVKRGMPVREARKMCPNLILVPARLDLYRRLSERLLSELEEVAPLVEVASIDELFLDLTGS- 108

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  364 AETKLSPEEFAAALRMEIKNKT-QCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSMESK 442
Cdd:cd00424   109 ARLLGLGSEVALRIKRHIAEQLgGITASIGIASNKLLAKLAAKYAKPDGLTILDPEDLPGFLSKLPLTDLPGIGAVTAKR 188

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  443 LASLGIKTCGDLQCLTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPREAEAFLLSLSGEI 522
Cdd:cd00424   189 LEAVGINPIGDLLAASPDALLALWGGVSGERLWYALRGIDDEPLSPPRPRKSFSHERVLPRDSRNAEDARPLLRLLLEKL 268

                         330
                  ....*....|....*.
gi 672064902  523 QSRLEAAGMKGKRLTL 538
Cdd:cd00424   269 ARRLRRDGRGATRLRL 284
PRK14133 PRK14133
DNA polymerase IV; Provisional
 202-607 1.77e-49

DNA polymerase IV; Provisional


Pssm-ID: 184529 [Multi-domain]  Cd Length: 347  Bit Score: 179.14  E-value: 1.77e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  202 VMHVDMDCFFVSVGIRNRPDLKGKPVAV--TSNRGTgraplrpganpqlewqyyqnkllkgkaadipdssvwenqdsaqt 279
Cdd:PRK14133    5 IIHVDMDAFFASVEQMDNPKLKGKPVIVggISERGV-------------------------------------------- 40

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  280 ngidsvlskaeIASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALIDV 359
Cdd:PRK14133   41 -----------VSTCSYEARKYGVHSAMPVFMAKKRCPHGIFLPVRHERYKEVSKNIFKILYEVTPIVEPVSIDEAYLDI 109

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  360 TDIlaetKLSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSM 439
Cdd:PRK14133  110 TNI----KEEPIKIAKYIKKKVKKETGLTLSVGISYNKFLAKLASDWNKPDGIKIITEDMIPDILKPLPISKVHGIGKKS 185

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  440 ESKLASLGIKTCGDLQCLTMAKLQKEFGpKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPREAEAFLLSLS 519
Cdd:PRK14133  186 VEKLNNIGIYTIEDLLKLSREFLIEYFG-KFGVEIYERIRGIDYREVEVSRERKSIGKETTLKKDTKDKEELKKYLKDFS 264

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  520 GEIQSRLEAAGMKGKRLTLKimvrkpgapIETAKFGGHgicdniARTVTLDQATDSAKIIGKATLNMFHTMKLNiSDMRG 599
Cdd:PRK14133  265 NIISEELKKRNLYGKTVTVK---------IKTSDFQTH------TKSKTLNDYIRDKEEIYNVACEILEHINIK-EPIRL 328


                  ....*...
gi 672064902  600 VGIQVHQL 607
Cdd:PRK14133  329 IGLSVSNL 336
PRK01810 PRK01810
DNA polymerase IV; Validated
 202-587 2.63e-47

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 174.83  E-value: 2.63e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  202 VMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRaplrpganpqlewqyyqnkllkgkaadipdssvwenqdsaqtnG 281
Cdd:PRK01810    7 IFHVDMNSFFASVEIAYDPSLQGKPLAVAGNEKERK-------------------------------------------G 43

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  282 IdsvlskaeIASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALIDVTD 361
Cdd:PRK01810   44 I--------IVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRRPNFDRYREASRQMFQILSEFTPLVQPVSIDEGYLDITD 115

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  362 ILAetKLSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSMES 441
Cdd:PRK01810  116 CYA--LGSPLEIAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKKPLGITVLRKRDVPEMLWPLPVGEMHGIGEKTAE 193

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  442 KLASLGIKTCGDLQCLTMAKLQKEFGpKTGQMLYRFCRGLDDRPVRTEK--ERKSVSAEINYGIRFTQPREAEAFLLSLS 519
Cdd:PRK01810  194 KLKDIGIQTIGDLAKADEHILRAKLG-INGVRLQRRANGIDDRPVDPEAiyQFKSVGNSTTLSHDMDEEKELLDVLRRLS 272

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 672064902  520 GEIQSRLEAAGMKGKrlTLKIMVRkpgapieTAKFgghgicDNIARTVTLDQATDSAKIIGKATLNMF 587
Cdd:PRK01810  273 KSVSKRLQKKTVVSY--NVQIMIR-------YHDR------RTITRSKTLKNPIWEKRDIFQAASRLF 325
PRK03103 PRK03103
DNA polymerase IV; Reviewed
 202-611 1.94e-45

DNA polymerase IV; Reviewed


Pssm-ID: 235104 [Multi-domain]  Cd Length: 409  Bit Score: 169.41  E-value: 1.94e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  202 VMHVDMDCFFVSVGIRNRPDLKGKPVAVTSnrgtgraplrpganpqlewqyyqnkllkgkaadipdssvwenqDSAQTNG 281
Cdd:PRK03103    5 ILLVDMQSFYASVEKAANPELKGRPVIVSG-------------------------------------------DPERRSG 41

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  282 IdsVLskaeiASCsYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALIDVTD 361
Cdd:PRK03103   42 V--VL-----AAC-PLAKAYGVKTAERLWEAQQKCPDLVVVKPRMQRYIDVSLQITRILEDFTDLVEPFSIDEQFLDVTG 113

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  362 ILaetKL--SPEEFAAALRMEIKNKTQCAASVGIGSNILLARMAT---KKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVG 436
Cdd:PRK03103  114 SQ---KLfgSPLEIAQKIQQRIMRETGVYARVGIGPNKLLAKMACdnfAKKNPDGLFTLDKEDVPADLWPLPVRKLFGVG 190

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  437 RSMESKLASLGIKTCGDLQCLTMAKLQKEFGpKTGQMLYRFCRGLDDRPVrtekERKSVSAEINYGIRFTQPREAEAF-- 514
Cdd:PRK03103  191 SRMEKHLRRMGIRTIGQLANTPLERLKKRWG-INGEVLWRTANGIDYSPV----TPHSLDRQKAIGHQMTLPRDYRGFee 265

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  515 ----LLSLSGEIQSRLEAAGMKGKrlTLKIMVRkpGAPIETAKfgghgicdNIARTVTLDQATDSAKIIGKATLNMFHTM 590
Cdd:PRK03103  266 ikvvLLELCEEVCRRARAKGYMGR--TVSVSLR--GADFDWPT--------GFSRQMTLPEPTNLAMEVYEAACKLFHRH 333

                         410       420
                  ....*....|....*....|.
gi 672064902  591 kLNISDMRGVGIQVHQLVPAN 611
Cdd:PRK03103  334 -WDGKPVRRVGVTLSNLVSDD 353
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 205-405 1.56e-44

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 157.74  E-value: 1.56e-44
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902   205 VDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRaplrpganpqlewqyyqnkllkgkaadipdssvwenqdsaqtngids 284
Cdd:pfam00817    1 IDMDAFFASVELLRDPELKGKPVAVGGGNGRGI----------------------------------------------- 33

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902   285 vlskaeIASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASY-THSIEAVSCDEALIDVTDiL 363
Cdd:pfam00817   34 ------VAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKIFEILRRFsTPKVEQASIDEAFLDLTG-L 106

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|..
gi 672064902   364 AETKLSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATK 405
Cdd:pfam00817  107 EKLFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLASD 148
Rev1_C cd12145
C-terminal domain of the Y-family polymerase Rev1; Rev1 is a eukaryotic translesion synthesis ...
 925-1018 4.94e-42

C-terminal domain of the Y-family polymerase Rev1; Rev1 is a eukaryotic translesion synthesis (TLS) polymerase; TLS 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. The C-terminal domain modeled here is essential for TLS and has been shown to mediate interactions with the Rev7 subunit of the B-family TLS polymerase Pol zeta (Rev3/Rev7), as well as with the RIRs (Rev1-interacting regions) of polymerases kappa, iota, and eta. Rev1 is known to actively promote the introduction of mutations, potentially making it a significant target for cancer treatment.


Pssm-ID: 213388  Cd Length: 94  Bit Score: 148.57  E-value: 4.94e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  925 PNLAGAVEFSDVKTLLKEWITTISDPMEEDILQVVKYCTDLIEEKDLEKLDLVIKYMKRLMQQSVESVWNMAFDFILDNV 1004
Cdd:cd12145     1 PTLSGATSLEEVKTLLKEWITSTPGPNEEDVELFVKYLSRLIDEKNLEKVDLLLKYLKRLVQQSGNSTWEEAYDRIIDVV 80

                          90
                  ....*....|....
gi 672064902 1005 QVVLQQTYGSTLKV 1018
Cdd:cd12145    81 QNRVKQTYGSPLKI 94
PRK03858 PRK03858
DNA polymerase IV; Validated
 197-575 7.96e-41

DNA polymerase IV; Validated


Pssm-ID: 179663 [Multi-domain]  Cd Length: 396  Bit Score: 155.53  E-value: 7.96e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  197 RPQSCVMHVDMDCFFVSVGIRNRPDLKGKPVAVtsnrGTGraplrpganpqlewqyyqnkllkgkaadipdssvwenqds 276
Cdd:PRK03858    1 RADASILHADLDSFYASVEQRDDPALRGRPVIV----GGG---------------------------------------- 36

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  277 aqtngidSVLSkaeiasCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEAL 356
Cdd:PRK03858   37 -------VVLA------ASYEAKAYGVRTAMGGRQARRLCPQAVVVPPRMSAYSRASKAVFEVFRDTTPLVEGLSIDEAF 103

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  357 IDVTDIlaeTKLS--PEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPG 434
Cdd:PRK03858  104 LDVGGL---RRISgtPVQIAARLRRRVREEVGLPITVGVARTKFLAKVASQVAKPDGLLVVPPDRELAFLHPLPVRRLWG 180

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  435 VGRSMESKLASLGIKTCGDLQCLTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPREAEAF 514
Cdd:PRK03858  181 VGPVTAAKLRAHGITTVGDVAELPESALVSLLGPAAGRHLHALAHNRDPRRVETGRRRRSVGAQRALGRGPNSPAEVDAV 260

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 672064902  515 LLSLSGEIQSRLEAAGMKGKRLTLKImvrkpgapietaKFGGHGicdNIARTVTLDQATDS 575
Cdd:PRK03858  261 VVALVDRVARRMRAAGRTGRTVVLRL------------RFDDFT---RATRSHTLPRPTAS 306
PRK03352 PRK03352
DNA polymerase IV; Validated
 202-540 2.98e-39

DNA polymerase IV; Validated


Pssm-ID: 179564 [Multi-domain]  Cd Length: 346  Bit Score: 149.40  E-value: 2.98e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  202 VMHVDMDCFFVSVGIRNRPDLKGKPVAVTsnrGTGraplrpganpqlewqyyqnkllkgkaadipdssvwenqDSAQTNG 281
Cdd:PRK03352    7 VLHVDLDQFIAAVELLRRPELAGLPVIVG---GNG--------------------------------------DPTEPRK 45

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  282 IdsvlskaeIASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALI--DV 359
Cdd:PRK03352   46 V--------VTCASYEARAFGVRAGMPLRTAARRCPDAVFLPSDPAAYDAASEEVMATLRDLGVPVEVWGWDEAFLgvDT 117

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  360 TDilaetklsPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSM 439
Cdd:PRK03352  118 DD--------PEALAEEIRAAVLERTGLSCSVGIGDNKLRAKIATGFAKPAGVFRLTDANWMAVMGDRPTDALWGVGPKT 189

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  440 ESKLASLGIKTCGDLQCLTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEK-ERKSVSAEINYGIRFTQPREAEAFLLSL 518
Cdd:PRK03352  190 AKRLAALGITTVADLAAADPAELAATFGPTTGPWLLLLARGGGDTEVSAEPwVPRSRSREVTFPQDLTDRAEVESAVREL 269

                         330       340
                  ....*....|....*....|..
gi 672064902  519 SGEIQSRLEAAGMKGKRLTLKI 540
Cdd:PRK03352  270 ARRVLDEVVAEGRPVTRVAVKV 291
PRK02794 PRK02794
DNA polymerase IV; Provisional
 204-587 8.26e-39

DNA polymerase IV; Provisional


Pssm-ID: 179473 [Multi-domain]  Cd Length: 419  Bit Score: 150.08  E-value: 8.26e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  204 HVDMDCFFVSVGIRNRPDLKGKPVAVtsnrGTGRaplrpganpqlewqyyqnkllKGkaadipdssvwenqdsaqtngid 283
Cdd:PRK02794   40 HIDCDAFYASVEKRDNPELRDKPVII----GGGK---------------------RG----------------------- 71

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  284 sVLSkaeiaSCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALIDVTDIL 363
Cdd:PRK02794   72 -VVS-----TACYIARIHGVRSAMPMFKALKLCPDAVVIKPDMEKYVRVGREVRAMMQALTPLVEPLSIDEAFLDLSGTE 145

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  364 AETKLSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSMESKL 443
Cdd:PRK02794  146 RLHGAPPAVVLARFARRVEREIGITVSVGLSYNKFLAKIASDLDKPRGFSVIGRAEALAFLAPKPVGIIWGVGPATAARL 225

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  444 ASLGIKTCGDLQCLTMAKLQKEFGpKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPREAEAFLLSLSGEIQ 523
Cdd:PRK02794  226 ARDGIRTIGDLQRADEADLMRRFG-SMGLRLWRLARGIDDRKVSPDREAKSVSAETTFETDLSDFEDLEPILWRLSEKVS 304

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 672064902  524 SRLEAAGMKGKRLTLKimvrkpgapIETAKFGGHgicdniARTVTLDQATDSAKIIGKATLNMF 587
Cdd:PRK02794  305 RRLKAAGLAGRTVTLK---------LKTADFRLR------TRRRTLEDPTQLADRIFRTARELL 353
PRK01216 PRK01216
DNA polymerase IV; Validated
 202-494 1.20e-32

DNA polymerase IV; Validated


Pssm-ID: 179251 [Multi-domain]  Cd Length: 351  Bit Score: 130.29  E-value: 1.20e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  202 VMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGtgraplrpganpqlewqyyqnkllkgkaadipdssvwENQDSAQtng 281
Cdd:PRK01216    3 ILFVDFDYFFAQVEEVLNPSLKGKPVVVCVYSG-------------------------------------RFEDSGA--- 42

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  282 idsvlskaeIASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSCDEALIDVTD 361
Cdd:PRK01216   43 ---------VATANYEARKLGIKAGMPIVEAKKILPNAVYLPMRKEVYQQVSNRIMKLLREYSEKIEIASIDEAYLDISD 113

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  362 ILAETKlSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSMES 441
Cdd:PRK01216  114 KVKNYQ-DAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRFINELDIADIPGIGDITAE 192

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|...
gi 672064902  442 KLASLGIKTCGDLQCLTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTeKERKS 494
Cdd:PRK01216  193 KLKKLGVNKLVDTLRIEFDELKGIIGEAKAKYLFSLARNEYNEPVRA-RVRKS 244
PolY_Pol_V_umuC cd01700
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ...
 203-540 4.48e-31

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: 125.35  E-value: 4.48e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  203 MHVDMDCFFVSVGIRNRPDLKGKPVAVTSNrgtgraplrpganpqlewqyyqnkllkgkaadiPDSSVwenqdsaqtngi 282
Cdd:cd01700     1 ALVDCNSFYASCERVFRPLLLGRPLVVLSN---------------------------------NDGCV------------ 35

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  283 dsvlskaeIAScSYEARQVGIKNGMFFGHAKQLCPNLQAV---P-YDFHAcrEVAQALYETLASYTHSIEAVSCDEALID 358
Cdd:cd01700    36 --------IAR-SPEAKALGIKMGSPYFKVPDLLERHGVAvfsSnYALYG--DMSRRIMSILERFSPDVEVYSIDESFLD 104

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  359 VTDILaeTKLSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMAT----KKAKPDGQYHLQPDEVDDFIRGQL-VTSLP 433
Cdd:cd01700   105 LTGSL--RFGDLEELARKIRRRILQETGIPVTVGIGPTKTLAKLANdlakKKNPYGGVVDLTDEEVRDKLLKILpVGDVW 182

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  434 GVGRSMESKLASLGIKTCGDLQCLTMAKLQKEFGpKTGQMLYRFCRGLDDRPVRTEKE-RKSVSAEINYGIRFTQPREAE 512
Cdd:cd01700   183 GIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKFG-VVGERLVRELNGIDCLPLEEYPPpKKSIGSSRSFGRDVTDLDELK 261

                         330       340
                  ....*....|....*....|....*...
gi 672064902  513 AFLLSLSGEIQSRLEAAGMKGKRLTLKI 540
Cdd:cd01700   262 QALAEYAERAAEKLRRQKSVARTISVFI 289
PolY_Pol_eta cd01702
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ...
 204-589 7.03e-30

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: 122.42  E-value: 7.03e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  204 HVDMDCFFVSVGIRNRPDLKGKPVAVtsnrgtgraplrpganpqlewqyyqnkllkgkaadipdssvwenqdsAQTNGID 283
Cdd:cd01702     2 HIDMDAFFAQVEQVRLGLLRNDPVAV-----------------------------------------------VQWNSII 34

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  284 SVlskaeiascSYEARQVGIKNGMFFGHAKQLCPNLQ----------AVPYDFHAC-------------REVAQALYETL 340
Cdd:cd01702    35 AV---------SYAARAFGVTRFMTIDEAKKKCPDLIlahvatykkgEDEADYHENpsparhkvsldpyRRASRKILNIL 105

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  341 ASYTHSIEAVSCDEALIDVTDILAETklspeefaaaLRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQPDEV 420
Cdd:cd01702   106 KRFGDVVEKASIDEAYLDLGSRIVEE----------IRQQVYDELGYTCSAGIAHNKMLAKLASGMNKPNAQTILRNDAV 175

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  421 DDFIRGQLVTSLPGVGRSM-ESKLASLGIKTCGDLQCL--TMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSA 497
Cdd:cd01702   176 ASFLSSLPITSIRGLGGKLgEEIIDLLGLPTEGDVAGFrsSESDLQEHFGEKLGEWLYNLLRGIDHEPVKPRPLPKSMGS 255

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  498 EINYGIRFTQPRE-AEAFLLSLSGEIQSRLEAA----GMKGKRLTLKIMVRKPGAPIEtakfgghgICDNIARTVTLDQA 572
Cdd:cd01702   256 SKNFPGKTALSTEdVQHWLLVLASELNSRLEDDryenNRRPKTLVLSLRQRGDGVRRS--------RSCALPRYDAQKIV 327

                         410
                  ....*....|....*..
gi 672064902  573 TDSAKIIGKATLNMFHT 589
Cdd:cd01702   328 KDAFKLIKAINEEGLGL 344
PolY_Pol_iota cd01703
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ...
 204-545 5.80e-29

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: 120.27  E-value: 5.80e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  204 HVDMDCFFVSVGIRNRPDLKGKPVAVtsnrgtgraplrpganpqlewqyyQNKLLkgkaadipdssvwenqdsaqtngid 283
Cdd:cd01703     2 HLDLDCFYAQVEEIRDPSLKSKPLGI------------------------QQKYI------------------------- 32

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  284 svlskaeIASCSYEARQVGIKNGMFFGHAKQLCPNLQAV------PYdfhacREVAQALYETLASYT--HSIEAVSCDEA 355
Cdd:cd01703    33 -------VVTCNYEARRLGVKKLMSIKDAKEICPDLVLVngedltPF-----RDMSKKVYRLLRSYSwnDRVERLGFDEN 100

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  356 LIDVTDIlaeTKLSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQP---DEVDDFIRGQLVTSL 432
Cdd:cd01703   101 FMDVTEM---RLLVASHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVNKPNQQTTLLPpscADLMDFMDLHDLRKI 177

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  433 PGVGRSMESKLASLGIKTCGDLQ---------------CLTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKER-KSVS 496
Cdd:cd01703   178 PGIGYKTAAKLEAHGISSVRDLQefsnrnrqtvgaapsLLELLLMVKEFGEGIGQRIWKLLFGRDTSPVKPASDFpQQIS 257

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 672064902  497 AEINYG-IRFTQPREAEAFLLSLSGEIQSRL------EAAGMKGKRLTLKIMVRKP 545
Cdd:cd01703   258 IEDSYKkCSLEEIREARNKIEELLASLLERMkqdlqeVKAGDGRRPHTLRLTLRRY 313
PolY_like cd03468
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ...
 291-539 3.47e-25

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: 107.85  E-value: 3.47e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  291 IASCSYEARQVGIKNGMFFGHAKQLCPNLQAVPYD----FHACREVAQALYEtlasYTHSIEAVSCDEALIDVTdilAET 366
Cdd:cd03468    36 ILACNAAARAAGVRPGMPLAEALALCPNLQVVEYDpeadARALQELALWLLR----FTPLVALDGPDGLLLDVT---GCL 108

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  367 KLSPEEFAAALRMEIKNKTQC-AASVGIGSNILLARMATKKAKPDGQYHLQPDEVDDFIRGQLVTSLPGVGRSMESKLAS 445
Cdd:cd03468   109 HLFGGEDALAASLRAALATLGlSARAGIADTPGAAWLLARAGGGRGVLRREALAAALVLLAPLPVAALRLPPETVELLAR 188

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  446 LGIKTCGDLQCLTMAKLQKEFGPKtGQMLYRFCRGLDDRPV--RTEKERKSVSAEINYGIRFTQPREAEafLLSLSGEIQ 523
Cdd:cd03468   189 LGLRTLGDLAALPRAELARRFGLA-LLLRLDQAYGRDPEPLlfSPPPPAFDFRLELQLEEPIARGLLFP--LRRLLEQLC 265

                         250
                  ....*....|....*.
gi 672064902  524 SRLEAAGMKGKRLTLK 539
Cdd:cd03468   266 AFLALRGLGARRLSLT 281
PTZ00205 PTZ00205
DNA polymerase kappa; Provisional
 193-454 9.26e-21

DNA polymerase kappa; Provisional


Pssm-ID: 140232 [Multi-domain]  Cd Length: 571  Bit Score: 97.78  E-value: 9.26e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  193 LSSPRPQSCVMHVDMDCFFVSVGIRNRPDLKGKPVAVtsnrgtgraplrpganpqlewqyyqnkllkgkaadipdssvwe 272
Cdd:PTZ00205  126 LEATRRLGTYIHLDMDMFYAAVEIKKHPEYAAIPLAI------------------------------------------- 162

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  273 nqdsaqtnGIDSVLSKAeiascSYEARQVGIKNGMFFGHAKQLCPNLQAVPYDFHACREVAQALYETLASYTHSIEAVSC 352
Cdd:PTZ00205  163 --------GTMTMLQTA-----NYVARGRGIRQGMPGFLALKICPNLLILPPDFDAYNEESNTVRRIVAEYDPNYISFGL 229

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  353 DEALIDVTDILA--ETKLSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKPDGQYHLQ---PDEVDDFIRGQ 427
Cdd:PTZ00205  230 DELTLEVSAYIErfEGTKTAEDVASELRVRVFGETKLTASAGIGPTAALAKIASNINKPNGQHDLNlhtRGDVMTYVRDL 309

                         250       260
                  ....*....|....*....|....*..
gi 672064902  428 LVTSLPGVGRSMESKLASLGIKTCGDL 454
Cdd:PTZ00205  310 GLRSVPGVGKVTEALLKGLGITTLSDI 336
IMS_C pfam11799
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
 492-611 2.46e-19

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: 84.15  E-value: 2.46e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902   492 RKSVSAEINYGIRFTQPREAEAFLLSLSGEIQSRLEAAGMKGKRLTLKIMvrkpgapieTAKFgghgicDNIARTVTLDQ 571
Cdd:pfam11799    1 RKSIGAERTFGRDLTDLEELREALLELAEELAERLRRQGLVARTVTVKIR---------YSDF------RTITRSVTLPS 65

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|
gi 672064902   572 ATDSAKIIGKATLNMFHTMKLNIsDMRGVGIQVHQLVPAN 611
Cdd:pfam11799   66 PTDDTDEIYRAALRLLRRLYRGR-PVRLLGVSLSNLVPEG 104
REV1_C pfam16727
DNA repair protein REV1 C-terminal domain; This is the C-terminal domain of DNA repair protein ...
 935-1016 5.18e-17

DNA repair protein REV1 C-terminal domain; This is the C-terminal domain of DNA repair protein REV1. It interacts with REV7, POLN, POLK and POLI.


Pssm-ID: 465248  Cd Length: 91  Bit Score: 76.89  E-value: 5.18e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902   935 DVKTLLKEWITTISD--PMEEDILQVVKYCTDLI-EEKDLEKLDLVIKYMKRLMQQS------VESVWNMAFDFILDNVQ 1005
Cdd:pfam16727    1 DVRDLLEAWVESFRDegPHEEDVEALAKYLVRVVlEERDLEKAVAVLKWLRWLVEEEggggeeGGEAWWKAFREVKEAVQ 80

                           90
                   ....*....|.
gi 672064902  1006 VVLQQTYGSTL 1016
Cdd:pfam16727   81 EAVRERGGGPL 91
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 789-824 2.44e-15

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: 70.33  E-value: 2.44e-15
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 672064902  789 ISVIALPAFSQVDPDVFAALPAELQKELKAAYDQRQ 824
Cdd:cd19318     1 GPIIALPSFSQVDPSVLAALPPDLQEELEAAYAQRQ 36
Rev1_UBM2 cd19318
Ubiquitin-Binding Motif 2 (UBM2) of Y-family polymerase Rev1; This model characterizes UBM2, ...
 712-745 3.40e-14

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: 67.25  E-value: 3.40e-14
                          10        20        30
                  ....*....|....*....|....*....|....
gi 672064902  712 SIEVPSPSQIDQSVLEALPPDIREQVEQAYAAQQ 745
Cdd:cd19318     3 IIALPSFSQVDPSVLAALPPDLQEELEAAYAQRQ 36
umuC PRK03609
translesion error-prone DNA polymerase V subunit UmuC;
204-506 1.07e-09

translesion error-prone DNA polymerase V subunit UmuC;


Pssm-ID: 179607 [Multi-domain]  Cd Length: 422  Bit Score: 61.70  E-value: 1.07e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  204 HVDMDCFFVSVGIRNRPDLKGKPVAVTSNRgtgraplrpganpqlewqyyqnkllkgkaadipDSSVwenqdsaqtngid 283
Cdd:PRK03609    4 LCDVNSFYASCETVFRPDLRGKPVVVLSNN---------------------------------DGCV------------- 37

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  284 svlskaeIAsCSYEARQVGIKNGMFFGHAKQLCPNLQAVP----YDFHAcrEVAQALYETLASYTHSIEAVSCDEALIDV 359
Cdd:PRK03609   38 -------IA-RSAEAKALGIKMGDPWFKQKDLFRRCGVVCfssnYELYA--DMSNRVMSTLEELSPRVEIYSIDEAFCDL 107

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  360 TDIlaETKLSPEEFAAALRMEIKNKTQCAASVGIGSNILLARMATKKAKpdgQYHLQPDEVDDFIRGQ----LVTSLP-- 433
Cdd:PRK03609  108 TGV--RNCRDLTDFGREIRATVLQRTHLTVGVGIAQTKTLAKLANHAAK---KWQRQTGGVVDLSNLErqrkLLSLQPve 182

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672064902  434 ---GVGRSMESKLASLGIKTCGDLQCLTMAKLQKEFgpktGQMLYRFCRGLDDRPVRTEKERKSVSAEI----NYGIRFT 506
Cdd:PRK03609  183 evwGVGRRISKKLNAMGIKTALDLADTNIRFIRKHF----NVVLERTVRELRGEPCLSLEEFAPTKQEIvcsrSFGERIT 258
IMS_HHH pfam11798
IMS family HHH motif; These proteins are involved in UV protection, eg.
 417-448 4.80e-04

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


Pssm-ID: 432081 [Multi-domain]  Cd Length: 32  Bit Score: 38.15  E-value: 4.80e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 672064902   417 PDEVDDFIRGQLVTSLPGVGRSMESKLASLGI 448
Cdd:pfam11798    1 PDDVPEFLWPLPISKIPGIGKKLAEKLKALGI 32
UBM pfam14377
Ubiquitin binding region; This family contains repetitive element (RE) from a subgroup of HECT ...
 716-745 6.73e-04

Ubiquitin binding region; This family contains repetitive element (RE) from a subgroup of HECT E3 ubiquitin ligases and the Y-family translesion polymerases, including human HUWE1 and Arabidopsis UPL1. Each of these repetitive elements are approximately 20 amino acids in length and contain two predicted helical segments separated by a Leu-Pro motif. The REs from the Y-family polymerases were shown to bind ubiquitin and were the basis for a novel ubiquitin-binding domain called the ubiquitin-binding motif (UBM).


Pssm-ID: 464159 [Multi-domain]  Cd Length: 34  Bit Score: 37.87  E-value: 6.73e-04
                           10        20        30
                   ....*....|....*....|....*....|
gi 672064902   716 PSPSQIDQSVLEALPPDIREQVEQAYAAQQ 745
Cdd:pfam14377    3 PPPEGIDPSFLAALPPDLRQEVLAQQDDER 32
 
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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