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Conserved domains on  [gi|1883531198|ref|WP_181340324|]
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DNA polymerase IV [Capillibacterium thermochitinicola]

Protein Classification

Y-family DNA polymerase( domain architecture ID 10132427)

Y-family DNA polymerase similar to DNA polymerase IV which is a poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis

CATH:  3.30.1490.100|3.30.70.270|2.30.40.20|1.10.150.810
EC:  2.7.7.7
Gene Ontology:  GO:0006281|GO:0003684|GO:0006260|GO:0046872|GO:0003887
PubMed:  15680965|24716551|20123134
SCOP:  4000563|4000558

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 10-345 0e+00

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: 516.69  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  10 IHLDMDAFYAAIEQLDNPAYRGKPVIVGGLPhERGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYREVSA 89
Cdd:cd03586     1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSS-DRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSR 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  90 AIMKLLREYTPLVEPLSCDEAFLDVTGSEPLFGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDLKKPRGFVVI 169
Cdd:cd03586    80 QIMEILREYTPLVEPLSIDEAYLDVTDYVRLFGSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVI 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 170 EEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGDLGINLYRLARGIDDRPVETDMDIKSIG 249
Cdd:cd03586   160 PPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGKSGRRLYELARGIDNRPVEPDRERKSIG 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 250 HETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTITRQTTLYQATDFEEVIYQTARQLAEAnA 329
Cdd:cd03586   240 VERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELLEE-L 318

                         330
                  ....*....|....*.
gi 1883531198 330 WSGKPLRLIGVSVSGL 345
Cdd:cd03586   319 LDGRPIRLLGVRLSGL 334
 
Name Accession Description Interval E-value
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 10-345 0e+00

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: 516.69  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  10 IHLDMDAFYAAIEQLDNPAYRGKPVIVGGLPhERGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYREVSA 89
Cdd:cd03586     1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSS-DRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSR 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  90 AIMKLLREYTPLVEPLSCDEAFLDVTGSEPLFGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDLKKPRGFVVI 169
Cdd:cd03586    80 QIMEILREYTPLVEPLSIDEAYLDVTDYVRLFGSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVI 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 170 EEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGDLGINLYRLARGIDDRPVETDMDIKSIG 249
Cdd:cd03586   160 PPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGKSGRRLYELARGIDNRPVEPDRERKSIG 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 250 HETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTITRQTTLYQATDFEEVIYQTARQLAEAnA 329
Cdd:cd03586   240 VERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELLEE-L 318

                         330
                  ....*....|....*.
gi 1883531198 330 WSGKPLRLIGVSVSGL 345
Cdd:cd03586   319 LDGRPIRLLGVRLSGL 334
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 7-343 5.56e-175

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 490.81  E-value: 5.56e-175
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198   7 RRIIHLDMDAFYAAIEQLDNPAYRGKPVIVGGlPHERGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYRE 86
Cdd:COG0389     1 RRILHVDMDAFYASVEQRDRPELRGKPVAVGG-DNNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRD 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  87 VSAAIMKLLREYTPLVEPLSCDEAFLDVTGSEPLFGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDLKKPRGF 166
Cdd:COG0389    80 VSRRVMAILERYTPLVEPLSIDEAFLDVTGSARLFGSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGL 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 167 VVIEEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGDLGINLYRLARGIDDRPVETDMDIK 246
Cdd:COG0389   160 TVIPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGKVGERLYRLARGIDPRPVEPRRPRK 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 247 SIGHETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTITRQTTLYQATDFEEVIYQTARQLAE 326
Cdd:COG0389   240 SIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRTSDFRTTTRSRTLPEPTDDTAELLRAARELLE 319

                         330
                  ....*....|....*..
gi 1883531198 327 ANAWSGKPLRLIGVSVS 343
Cdd:COG0389   320 RIYRPGRPVRLLGVRLS 336
PRK02406 PRK02406
DNA polymerase IV; Validated
 14-356 6.31e-160

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 452.65  E-value: 6.31e-160
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  14 MDAFYAAIEQLDNPAYRGKPVIVGGLPHERGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYREVSAAIMK 93
Cdd:PRK02406    1 MDCFYAAVEMRDNPELRGKPVAVGGSPGRRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIRE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  94 LLREYTPLVEPLSCDEAFLDVTGSEPLFGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDLKKPRGFVVIEEED 173
Cdd:PRK02406   81 IFRRYTDLIEPLSLDEAYLDVTDNKLCIGSATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPEE 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 174 VLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGDLGINLYRLARGIDDRPVETDMDIKSIGHETT 253
Cdd:PRK02406  161 VDAFLATLPVEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFGKFGRRLYERARGIDERPVKPDRERKSVGVERT 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 254 FQEDTADREFLEETLWYLSEKVARRLRRKG--LVGKVITIKLRDHDFQTITRQTTlYQATDFEEVIYQTARQLAEANawS 331
Cdd:PRK02406  241 FAEDLYDLEACLAELPRLAEKLERRLERAKpdKRIKTVGVKLKFADFQQTTKEHT-ADPLDKADLIELLAQALLRRL--G 317

                         330       340
                  ....*....|....*....|....*
gi 1883531198 332 GKPLRLIGVSVSGLQTRENSQAPLF 356
Cdd:PRK02406  318 GRGVRLLGVGVTLLEPQLERQLLLD 342
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 12-159 5.56e-70

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 216.67  E-value: 5.56e-70
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  12 LDMDAFYAAIEQLDNPAYRGKPVIVGGLPhERGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYREVSAAI 91
Cdd:pfam00817   1 IDMDAFFASVELLRDPELKGKPVAVGGGN-GRGIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKI 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1883531198  92 MKLLREY-TPLVEPLSCDEAFLDVTGSEPLFGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASD 159
Cdd:pfam00817  80 FEILRRFsTPKVEQASIDEAFLDLTGLEKLFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLASD 148
 
Name Accession Description Interval E-value
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 10-345 0e+00

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: 516.69  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  10 IHLDMDAFYAAIEQLDNPAYRGKPVIVGGLPhERGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYREVSA 89
Cdd:cd03586     1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSS-DRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSR 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  90 AIMKLLREYTPLVEPLSCDEAFLDVTGSEPLFGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDLKKPRGFVVI 169
Cdd:cd03586    80 QIMEILREYTPLVEPLSIDEAYLDVTDYVRLFGSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVI 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 170 EEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGDLGINLYRLARGIDDRPVETDMDIKSIG 249
Cdd:cd03586   160 PPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGKSGRRLYELARGIDNRPVEPDRERKSIG 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 250 HETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTITRQTTLYQATDFEEVIYQTARQLAEAnA 329
Cdd:cd03586   240 VERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELLEE-L 318

                         330
                  ....*....|....*.
gi 1883531198 330 WSGKPLRLIGVSVSGL 345
Cdd:cd03586   319 LDGRPIRLLGVRLSGL 334
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 7-343 5.56e-175

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 490.81  E-value: 5.56e-175
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198   7 RRIIHLDMDAFYAAIEQLDNPAYRGKPVIVGGlPHERGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYRE 86
Cdd:COG0389     1 RRILHVDMDAFYASVEQRDRPELRGKPVAVGG-DNNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRD 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  87 VSAAIMKLLREYTPLVEPLSCDEAFLDVTGSEPLFGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDLKKPRGF 166
Cdd:COG0389    80 VSRRVMAILERYTPLVEPLSIDEAFLDVTGSARLFGSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGL 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 167 VVIEEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGDLGINLYRLARGIDDRPVETDMDIK 246
Cdd:COG0389   160 TVIPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGKVGERLYRLARGIDPRPVEPRRPRK 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 247 SIGHETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTITRQTTLYQATDFEEVIYQTARQLAE 326
Cdd:COG0389   240 SIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRTSDFRTTTRSRTLPEPTDDTAELLRAARELLE 319

                         330
                  ....*....|....*..
gi 1883531198 327 ANAWSGKPLRLIGVSVS 343
Cdd:COG0389   320 RIYRPGRPVRLLGVRLS 336
PRK02406 PRK02406
DNA polymerase IV; Validated
 14-356 6.31e-160

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 452.65  E-value: 6.31e-160
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  14 MDAFYAAIEQLDNPAYRGKPVIVGGLPHERGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYREVSAAIMK 93
Cdd:PRK02406    1 MDCFYAAVEMRDNPELRGKPVAVGGSPGRRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIRE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  94 LLREYTPLVEPLSCDEAFLDVTGSEPLFGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDLKKPRGFVVIEEED 173
Cdd:PRK02406   81 IFRRYTDLIEPLSLDEAYLDVTDNKLCIGSATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPEE 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 174 VLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGDLGINLYRLARGIDDRPVETDMDIKSIGHETT 253
Cdd:PRK02406  161 VDAFLATLPVEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFGKFGRRLYERARGIDERPVKPDRERKSVGVERT 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 254 FQEDTADREFLEETLWYLSEKVARRLRRKG--LVGKVITIKLRDHDFQTITRQTTlYQATDFEEVIYQTARQLAEANawS 331
Cdd:PRK02406  241 FAEDLYDLEACLAELPRLAEKLERRLERAKpdKRIKTVGVKLKFADFQQTTKEHT-ADPLDKADLIELLAQALLRRL--G 317

                         330       340
                  ....*....|....*....|....*
gi 1883531198 332 GKPLRLIGVSVSGLQTRENSQAPLF 356
Cdd:PRK02406  318 GRGVRLLGVGVTLLEPQLERQLLLD 342
PRK02794 PRK02794
DNA polymerase IV; Provisional
 9-390 6.46e-149

DNA polymerase IV; Provisional


Pssm-ID: 179473 [Multi-domain]  Cd Length: 419  Bit Score: 427.81  E-value: 6.46e-149
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198   9 IIHLDMDAFYAAIEQLDNPAYRGKPVIVGGlpHERGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYREVS 88
Cdd:PRK02794   38 IAHIDCDAFYASVEKRDNPELRDKPVIIGG--GKRGVVSTACYIARIHGVRSAMPMFKALKLCPDAVVIKPDMEKYVRVG 115

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  89 AAIMKLLREYTPLVEPLSCDEAFLDVTGSEPLFG--PAETIARqIVDRIAAELQLSASVGVAPNKFLAKLASDLKKPRGF 166
Cdd:PRK02794  116 REVRAMMQALTPLVEPLSIDEAFLDLSGTERLHGapPAVVLAR-FARRVEREIGITVSVGLSYNKFLAKIASDLDKPRGF 194

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 167 VVIEEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGDLGINLYRLARGIDDRPVETDMDIK 246
Cdd:PRK02794  195 SVIGRAEALAFLAPKPVGIIWGVGPATAARLARDGIRTIGDLQRADEADLMRRFGSMGLRLWRLARGIDDRKVSPDREAK 274

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 247 SIGHETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTITRQTTLYQATDFEEVIYQTARQLAE 326
Cdd:PRK02794  275 SVSAETTFETDLSDFEDLEPILWRLSEKVSRRLKAAGLAGRTVTLKLKTADFRLRTRRRTLEDPTQLADRIFRTARELLE 354

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1883531198 327 ANAwSGKPLRLIGVSVSGLQTRENSQAP-LFTESADTDLRAlHQTLDRIRERFGENAITRARFLK 390
Cdd:PRK02794  355 KET-DGTAFRLIGIGVSDLSPADEADPPdLLDPQATRRAAA-ERAIDALRAKFGAAAVETGRALR 417
PRK14133 PRK14133
DNA polymerase IV; Provisional
 7-356 1.63e-137

DNA polymerase IV; Provisional


Pssm-ID: 184529 [Multi-domain]  Cd Length: 347  Bit Score: 396.01  E-value: 1.63e-137
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198   7 RRIIHLDMDAFYAAIEQLDNPAYRGKPVIVGGLPhERGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYRE 86
Cdd:PRK14133    3 RVIIHVDMDAFFASVEQMDNPKLKGKPVIVGGIS-ERGVVSTCSYEARKYGVHSAMPVFMAKKRCPHGIFLPVRHERYKE 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  87 VSAAIMKLLREYTPLVEPLSCDEAFLDVT--GSEPlfgpaETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDLKKPR 164
Cdd:PRK14133   82 VSKNIFKILYEVTPIVEPVSIDEAYLDITniKEEP-----IKIAKYIKKKVKKETGLTLSVGISYNKFLAKLASDWNKPD 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 165 GFVVIEEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGDLGINLYRLARGIDDRPVETDMD 244
Cdd:PRK14133  157 GIKIITEDMIPDILKPLPISKVHGIGKKSVEKLNNIGIYTIEDLLKLSREFLIEYFGKFGVEIYERIRGIDYREVEVSRE 236

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 245 IKSIGHETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTITRQTTLYQATDFEEVIYQTARQL 324
Cdd:PRK14133  237 RKSIGKETTLKKDTKDKEELKKYLKDFSNIISEELKKRNLYGKTVTVKIKTSDFQTHTKSKTLNDYIRDKEEIYNVACEI 316

                         330       340       350
                  ....*....|....*....|....*....|..
gi 1883531198 325 AEANAWSgKPLRLIGVSVSGLQTRENSQAPLF 356
Cdd:PRK14133  317 LEHINIK-EPIRLIGLSVSNLSENKIEQLSFL 347
PRK01810 PRK01810
DNA polymerase IV; Validated
 5-385 1.10e-131

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 383.61  E-value: 1.10e-131
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198   5 QRRRII-HLDMDAFYAAIEQLDNPAYRGKPVIVGGLPHER-GVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQ 82
Cdd:PRK01810    2 KKGRVIfHVDMNSFFASVEIAYDPSLQGKPLAVAGNEKERkGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRRPNFD 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  83 RYREVSAAIMKLLREYTPLVEPLSCDEAFLDVTGSEPLFGPAETiARQIVDRIAAELQLSASVGVAPNKFLAKLASDLKK 162
Cdd:PRK01810   82 RYREASRQMFQILSEFTPLVQPVSIDEGYLDITDCYALGSPLEI-AKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKK 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 163 PRGFVVIEEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGDLGINLYRLARGIDDRPV--E 240
Cdd:PRK01810  161 PLGITVLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLGINGVRLQRRANGIDDRPVdpE 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 241 TDMDIKSIGHETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTITRQTTLYQATDFEEVIYQT 320
Cdd:PRK01810  241 AIYQFKSVGNSTTLSHDMDEEKELLDVLRRLSKSVSKRLQKKTVVSYNVQIMIRYHDRRTITRSKTLKNPIWEKRDIFQA 320

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1883531198 321 ARQLAEaNAWSGKPLRLIGVSVSGLQTRENS--QAPLFTESADTDLRALHQTLDRIRERFGENAITR 385
Cdd:PRK01810  321 ASRLFK-QHWNGDPVRLLGVTATDLEWKTEAvkQLDLFSFEEDAKEEPLLAVIDQINDKYGMPLLQR 386
PRK03103 PRK03103
DNA polymerase IV; Reviewed
 6-386 2.42e-131

DNA polymerase IV; Reviewed


Pssm-ID: 235104 [Multi-domain]  Cd Length: 409  Bit Score: 382.81  E-value: 2.42e-131
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198   6 RRRIIHL-DMDAFYAAIEQLDNPAYRGKPVIVGGLPHER-GVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQR 83
Cdd:PRK03103    1 MERVILLvDMQSFYASVEKAANPELKGRPVIVSGDPERRsGVVLAACPLAKAYGVKTAERLWEAQQKCPDLVVVKPRMQR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  84 YREVSAAIMKLLREYTPLVEPLSCDEAFLDVTGSEPLFGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDL--- 160
Cdd:PRK03103   81 YIDVSLQITRILEDFTDLVEPFSIDEQFLDVTGSQKLFGSPLEIAQKIQQRIMRETGVYARVGIGPNKLLAKMACDNfak 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 161 KKPRGFVVIEEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGDLGINLYRLARGIDDRPVE 240
Cdd:PRK03103  161 KNPDGLFTLDKEDVPADLWPLPVRKLFGVGSRMEKHLRRMGIRTIGQLANTPLERLKKRWGINGEVLWRTANGIDYSPVT 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 241 TDM--DIKSIGHETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTIT---RQTTLYQATDFEE 315
Cdd:PRK03103  241 PHSldRQKAIGHQMTLPRDYRGFEEIKVVLLELCEEVCRRARAKGYMGRTVSVSLRGADFDWPTgfsRQMTLPEPTNLAM 320

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1883531198 316 VIYQTARQLAEANaWSGKPLRLIGVSVSGLQTRENSQAPLFTESAdtDLRALHQTLDRIRERFGENAITRA 386
Cdd:PRK03103  321 EVYEAACKLFHRH-WDGKPVRRVGVTLSNLVSDDVWQLSLFGDRE--RKRSLGYVMDDIKNRFGPTAILRA 388
PRK03348 PRK03348
DNA polymerase IV; Provisional
 4-360 2.40e-126

DNA polymerase IV; Provisional


Pssm-ID: 235118 [Multi-domain]  Cd Length: 454  Bit Score: 371.57  E-value: 2.40e-126
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198   4 RQRRRIIHLDMDAFYAAIEQLDNPAYRGKPVIVGGLpHERGVVSTCSYEARKYGIRSAMPLREAARRCPHG-IFVPGRMQ 82
Cdd:PRK03348    2 RAQRWVLHLDMDAFFASVEQLTRPTLRGRPVLVGGL-GGRGVVAGASYEARVFGARSAMPMHQARRLVGNGaVVLPPRFV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  83 RYREVSAAIMKLLREYTPLVEPLSCDEAFLD---VTGSEPlfGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASD 159
Cdd:PRK03348   81 VYRAASRRVFDTLRELSPVVEQLSFDEAFVEpaeLAGASA--EEVEAFAERLRARVREETGLPASVGAGSGKQIAKIASG 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 160 LKKPRGFVVIEEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGD-LGINLYRLARGIDDRP 238
Cdd:PRK03348  159 LAKPDGIRVVPPGEERELLAPLPVRRLWGIGPVTEEKLHRLGIETIGDLAALSEAEVANLLGAtVGPALHRLARGIDDRP 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 239 VETDMDIKSIGHETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTITRQTTLYQATDFEEVIY 318
Cdd:PRK03348  239 VAERAEAKQISAESTFAVDLTTRAQLREAIERIAEHAHRRLLKDGRGARTVTVKLRKSDFSTLTRSATLPYATDDAAVLA 318

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|..
gi 1883531198 319 QTARQLAEANAWSGkPLRLIGVSVSGLQtrENSQAPLFTESA 360
Cdd:PRK03348  319 ATARRLLLDPDEIG-PIRLVGVGFSGLS--DVRQESLFPELD 357
PRK03858 PRK03858
DNA polymerase IV; Validated
 9-386 1.98e-117

DNA polymerase IV; Validated


Pssm-ID: 179663 [Multi-domain]  Cd Length: 396  Bit Score: 346.97  E-value: 1.98e-117
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198   9 IIHLDMDAFYAAIEQLDNPAYRGKPVIVGGlpherGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYREVS 88
Cdd:PRK03858    6 ILHADLDSFYASVEQRDDPALRGRPVIVGG-----GVVLAASYEAKAYGVRTAMGGRQARRLCPQAVVVPPRMSAYSRAS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  89 AAIMKLLREYTPLVEPLSCDEAFLDVTGSEPLFGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDLKKPRGFVV 168
Cdd:PRK03858   81 KAVFEVFRDTTPLVEGLSIDEAFLDVGGLRRISGTPVQIAARLRRRVREEVGLPITVGVARTKFLAKVASQVAKPDGLLV 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 169 IEEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGD-LGINLYRLARGIDDRPVETDMDIKS 247
Cdd:PRK03858  161 VPPDRELAFLHPLPVRRLWGVGPVTAAKLRAHGITTVGDVAELPESALVSLLGPaAGRHLHALAHNRDPRRVETGRRRRS 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 248 IGHETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTITRQTTLYQATDFEEVIYQTARQLAeA 327
Cdd:PRK03858  241 VGAQRALGRGPNSPAEVDAVVVALVDRVARRMRAAGRTGRTVVLRLRFDDFTRATRSHTLPRPTASTATLLAAARDLV-A 319

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1883531198 328 NAWSGKPLR---LIGVSVSGLQTRENSQAPL-FTESADTDlrALHQTLDRIRERFGENAITRA 386
Cdd:PRK03858  320 AAAPLIAERgltLVGFAVSNLDDDGAQQLELpFGLRRPGS--ALDAALDAVRDRFGNAAVTRA 380
PRK03352 PRK03352
DNA polymerase IV; Validated
 6-340 1.94e-76

DNA polymerase IV; Validated


Pssm-ID: 179564 [Multi-domain]  Cd Length: 346  Bit Score: 240.31  E-value: 1.94e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198   6 RRRIIHLDMDAFYAAIEQLDNPAYRGKPVIVGGL--PHE-RGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQ 82
Cdd:PRK03352    4 PRWVLHVDLDQFIAAVELLRRPELAGLPVIVGGNgdPTEpRKVVTCASYEARAFGVRAGMPLRTAARRCPDAVFLPSDPA 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  83 RYREVSAAIMKLLREYTPLVEPLSCDEAFLDVTGSEPlfgpaETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDLKK 162
Cdd:PRK03352   84 AYDAASEEVMATLRDLGVPVEVWGWDEAFLGVDTDDP-----EALAEEIRAAVLERTGLSCSVGIGDNKLRAKIATGFAK 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 163 PRGFVVIEEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLG-DLGINLYRLARGIDDRPVET 241
Cdd:PRK03352  159 PAGVFRLTDANWMAVMGDRPTDALWGVGPKTAKRLAALGITTVADLAAADPAELAATFGpTTGPWLLLLARGGGDTEVSA 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 242 DMDI-KSIGHETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTITRQTTLYQATDFEEVIYQT 320
Cdd:PRK03352  239 EPWVpRSRSREVTFPQDLTDRAEVESAVRELARRVLDEVVAEGRPVTRVAVKVRTATFYTRTKIRKLPEPTTDPDVIEAA 318

                         330       340
                  ....*....|....*....|
gi 1883531198 321 ARQLAEANAwSGKPLRLIGV 340
Cdd:PRK03352  319 ALDVLDRFE-LDRPVRLLGV 337
PolY_Pol_V_umuC cd01700
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ...
 12-344 1.26e-74

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: 235.52  E-value: 1.26e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  12 LDMDAFYAAIEQLDNPAYRGKPVIVggLPHERGVVSTCSYEARKYGIRSAMPLREAARRCP-HGI-FVPGRMQRYREVSA 89
Cdd:cd01700     3 VDCNSFYASCERVFRPLLLGRPLVV--LSNNDGCVIARSPEAKALGIKMGSPYFKVPDLLErHGVaVFSSNYALYGDMSR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  90 AIMKLLREYTPLVEPLSCDEAFLDVTGSePLFGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDL--KKPR--G 165
Cdd:cd01700    81 RIMSILERFSPDVEVYSIDESFLDLTGS-LRFGDLEELARKIRRRILQETGIPVTVGIGPTKTLAKLANDLakKKNPygG 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 166 FVVIEEEDVLS-FLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGDLGINLYRLARGIDDRPVETDMD 244
Cdd:cd01700   160 VVDLTDEEVRDkLLKILPVGDVWGIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKFGVVGERLVRELNGIDCLPLEEYPP 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 245 I-KSIGHETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLR----DHDFQTITRQTTLYQATDFEEVIYQ 319
Cdd:cd01700   240 PkKSIGSSRSFGRDVTDLDELKQALAEYAERAAEKLRRQKSVARTISVFIGtsgfSRQPKYYSATNTLPYPTNDTREIVK 319

                         330       340
                  ....*....|....*....|....*
gi 1883531198 320 TARQLAEANAWSGKPLRLIGVSVSG 344
Cdd:cd01700   320 AALRLLYAIYRPGYAYRKAGVMLSD 344
PolY cd00424
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 11-343 5.82e-74

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: 233.79  E-value: 5.82e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  11 HLDMDAFYAAIEQLDNPAYRGKPVIVGGLPHERGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYREVSAA 90
Cdd:cd00424     2 HIDFDNFFASVEQLARPELKGRPVVVVPFNSDSTCVIACSYEARKYGVKRGMPVREARKMCPNLILVPARLDLYRRLSER 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  91 IMKLLREYTPLVEPLSCDEAFLDVTGSEPLFGPAETIARQIVDRIAAEL-QLSASVGVAPNKFLAKLASDLKKPRGFVVI 169
Cdd:cd00424    82 LLSELEEVAPLVEVASIDELFLDLTGSARLLGLGSEVALRIKRHIAEQLgGITASIGIASNKLLAKLAAKYAKPDGLTIL 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 170 EEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLG-DLGINLYRLARGIDDRPVETDMDIKSI 248
Cdd:cd00424   162 DPEDLPGFLSKLPLTDLPGIGAVTAKRLEAVGINPIGDLLAASPDALLALWGgVSGERLWYALRGIDDEPLSPPRPRKSF 241

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 249 GHETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTI------TRQTTLYQATDFEEvIYQTAR 322
Cdd:cd00424   242 SHERVLPRDSRNAEDARPLLRLLLEKLARRLRRDGRGATRLRLWLRTVDGRWSghadipSRSAPRPISTEDGE-LLHALD 320

                         330       340
                  ....*....|....*....|...
gi 1883531198 323 QLAEA--NAWSGKPLRLIGVSVS 343
Cdd:cd00424   321 KLWRAllDDKGPRRLRRLGVRLS 343
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 12-159 5.56e-70

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 216.67  E-value: 5.56e-70
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  12 LDMDAFYAAIEQLDNPAYRGKPVIVGGLPhERGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYREVSAAI 91
Cdd:pfam00817   1 IDMDAFFASVELLRDPELKGKPVAVGGGN-GRGIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKI 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1883531198  92 MKLLREY-TPLVEPLSCDEAFLDVTGSEPLFGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASD 159
Cdd:pfam00817  80 FEILRRFsTPKVEQASIDEAFLDLTGLEKLFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLASD 148
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
 4-345 4.60e-68

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: 220.26  E-value: 4.60e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198   4 RQRRRIIHLDMDAFYAAIEQLDNPAYRGKPVIVGglpHERGV---VSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGR 80
Cdd:cd01701    44 DLQRIIMHVDFDCFFVSVSIRNRPDLKGKPVAVC---HGKGPnseIASCNYEARSYGIKNGMWVGQAKKLCPQLVTLPYD 120

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  81 MQRYREVSAAIMKLLREYTPLVEPLSCDEAFLDVTG-SEPLFGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASD 159
Cdd:cd01701   121 FEAYEEVSLTFYEILASYTDNIEAVSCDEALIDITSlLEETYELPEELAEAIRNEIRETTGCSASVGIGPNILLARLATR 200

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 160 LKKPRGFVVIEEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTY--LRENLGD-LGINLYRLARGIDD 236
Cdd:cd01701   201 KAKPDGQYHLSAEKVEEFLSQLKVGDLPGVGSSLAEKLVKLFGDTCGGLELRSKTKekLQKVLGPkTGEKLYDYCRGIDD 280

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 237 RPVETDMDIKSIGHETT----FQEDTADREFLEEtlwyLSEKVARRLRRKGLVGKVITIKL----RDHDFQT-------- 300
Cdd:cd01701   281 RPVTGEKERKSVSAEINygirFTNVDDVEQFLQR----LSEELSKRLEESNVTGRQITLKLmkraPGAPIEPpkymghgi 356

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*...
gi 1883531198 301 ---ITRQTTLYQATDFEEVIYQTARQLAEANAWSGKPLRLIGVSVSGL 345
Cdd:cd01701   357 cdsFSKSSTLGVATDDSGVIGTEAKKLFRDLSIPPEELRGVGIQVTKL 404
PRK01216 PRK01216
DNA polymerase IV; Validated
 9-343 1.92e-58

DNA polymerase IV; Validated


Pssm-ID: 179251 [Multi-domain]  Cd Length: 351  Bit Score: 193.85  E-value: 1.92e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198   9 IIHLDMDAFYAAIEQLDNPAYRGKPVIV---GGLPHERGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYR 85
Cdd:PRK01216    3 ILFVDFDYFFAQVEEVLNPSLKGKPVVVcvySGRFEDSGAVATANYEARKLGIKAGMPIVEAKKILPNAVYLPMRKEVYQ 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  86 EVSAAIMKLLREYTPLVEPLSCDEAFLDVTGSEPLFGPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDLKKPRG 165
Cdd:PRK01216   83 QVSNRIMKLLREYSEKIEIASIDEAYLDISDKVKNYQDAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNG 162

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 166 FVVIEEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLRENLGDLGIN-LYRLARGIDDRPVETDMd 244
Cdd:PRK01216  163 IKVIDDEEVKRFINELDIADIPGIGDITAEKLKKLGVNKLVDTLRIEFDELKGIIGEAKAKyLFSLARNEYNEPVRARV- 241

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 245 IKSIGHETTFQEDTADrefLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTITRQTTLYQATDFEEVIYQTARQL 324
Cdd:PRK01216  242 RKSIGRYVTLPRNTRD---LEEIKPYLKRAIEEAYYKLDGIPKAIHVVAIMEDLDIVSRGRTFTHGISKETAYREAVRLL 318

                         330
                  ....*....|....*....
gi 1883531198 325 AEANAWSGKPLRLIGVSVS 343
Cdd:PRK01216  319 QKILEEDERKIRRIGVRFS 337
PolY_Pol_eta cd01702
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ...
 11-344 5.63e-47

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: 164.02  E-value: 5.63e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  11 HLDMDAFYAAIEQLDNPAYRGKPVIVgglpHERGVVSTCSYEARKYGIRSAMPLREAARRCP------------------ 72
Cdd:cd01702     2 HIDMDAFFAQVEQVRLGLLRNDPVAV----VQWNSIIAVSYAARAFGVTRFMTIDEAKKKCPdlilahvatykkgedead 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  73 -HGIFVPGR----MQRYREVSAAIMKLLREYTPLVEPLSCDEAFLDVtGSEplfgpaetIARQIVDRIAAELQLSASVGV 147
Cdd:cd01702    78 yHENPSPARhkvsLDPYRRASRKILNILKRFGDVVEKASIDEAYLDL-GSR--------IVEEIRQQVYDELGYTCSAGI 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 148 APNKFLAKLASDLKKPRGFVVIEEEDVLSFLAPLPINRIWGVGPKTTTQL-QKMGLKTIGDLQEL-SLTYLRENL--GDL 223
Cdd:cd01702   149 AHNKMLAKLASGMNKPNAQTILRNDAVASFLSSLPITSIRGLGGKLGEEIiDLLGLPTEGDVAGFrSSESDLQEHfgEKL 228

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 224 GINLYRLARGIDDRPVETDMDIKSIGHETTF-QEDTADREFLEETLWYLSEKVARRLR----RKGLVGKVITIKLR-DHD 297
Cdd:cd01702   229 GEWLYNLLRGIDHEPVKPRPLPKSMGSSKNFpGKTALSTEDVQHWLLVLASELNSRLEddryENNRRPKTLVLSLRqRGD 308

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1883531198 298 FQTITRQT--TLYQATDFEEVIYQTARQLAEA---NAWSgKPLRLIGVSVSG 344
Cdd:cd01702   309 GVRRSRSCalPRYDAQKIVKDAFKLIKAINEEglgLAWN-YPLTLLSLSFTK 359
PolY_Pol_iota cd01703
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ...
 10-254 2.03e-45

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: 160.33  E-value: 2.03e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  10 IHLDMDAFYAAIEQLDNPAYRGKPVIVgglpHERGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGR-MQRYREVS 88
Cdd:cd01703     1 IHLDLDCFYAQVEEIRDPSLKSKPLGI----QQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGEdLTPFRDMS 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  89 AAIMKLLREYTP--LVEPLSCDEAFLDVTGSEPLFgpAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDLKKPRG- 165
Cdd:cd01703    77 KKVYRLLRSYSWndRVERLGFDENFMDVTEMRLLV--ASHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVNKPNQq 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 166 --FVVIEEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQE---------------LSLTYLRENLG-DLGINL 227
Cdd:cd01703   155 ttLLPPSCADLMDFMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQEfsnrnrqtvgaapslLELLLMVKEFGeGIGQRI 234

                         250       260
                  ....*....|....*....|....*...
gi 1883531198 228 YRLARGIDDRPVETDMDI-KSIGHETTF 254
Cdd:cd01703   235 WKLLFGRDTSPVKPASDFpQQISIEDSY 262
PTZ00205 PTZ00205
DNA polymerase kappa; Provisional
 7-345 1.83e-35

DNA polymerase kappa; Provisional


Pssm-ID: 140232 [Multi-domain]  Cd Length: 571  Bit Score: 136.69  E-value: 1.83e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198   7 RRI---IHLDMDAFYAAIEQLDNPAYRGKPVIVGGLPhergVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQR 83
Cdd:PTZ00205  130 RRLgtyIHLDMDMFYAAVEIKKHPEYAAIPLAIGTMT----MLQTANYVARGRGIRQGMPGFLALKICPNLLILPPDFDA 205

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  84 YREVSAAIMKLLREYTPLVEPLSCDEAFLDVTGSEPLF---GPAETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDL 160
Cdd:PTZ00205  206 YNEESNTVRRIVAEYDPNYISFGLDELTLEVSAYIERFegtKTAEDVASELRVRVFGETKLTASAGIGPTAALAKIASNI 285

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 161 KKPRG---FVVIEEEDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDL--QELSLTYLRENlgdlgiNLYRL----A 231
Cdd:PTZ00205  286 NKPNGqhdLNLHTRGDVMTYVRDLGLRSVPGVGKVTEALLKGLGITTLSDIynRRVELCYILHN------NLFRFllgaS 359

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 232 RGIDDRP----------VE--TDMDIKSIGHETTFQEdTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQ 299
Cdd:PTZ00205  360 IGIMQWPdaataantenCEgaTGGQRKAISSERSFTT-PRTKEGLQEMVDTVFNGAYEEMRKSELMCRQISLTIRWASYR 438

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*.
gi 1883531198 300 TITRQTTLYQATDFEEVIYQTARQLAEANAWSGKPLRLIGVSVSGL 345
Cdd:PTZ00205  439 YQQYTKSLIQYSDDSATLRRAVDGLLLPHAAKYSEMCLLGVRFLDL 484
IMS_C pfam11799
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
 246-349 1.11e-32

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: 118.43  E-value: 1.11e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 246 KSIGHETTFQEDTADREFLEETLWYLSEKVARRLRRKGLVGKVITIKLRDHDFQTITRQTTLYQATDFEEVIYQTARQLA 325
Cdd:pfam11799   2 KSIGAERTFGRDLTDLEELREALLELAEELAERLRRQGLVARTVTVKIRYSDFRTITRSVTLPSPTDDTDEIYRAALRLL 81

                          90       100
                  ....*....|....*....|....
gi 1883531198 326 EANaWSGKPLRLIGVSVSGLQTRE 349
Cdd:pfam11799  82 RRL-YRGRPVRLLGVSLSNLVPEG 104
PolY_like cd03468
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ...
 43-329 6.05e-30

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: 117.87  E-value: 6.05e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  43 RGVVSTCSYEARKYGIRSAMPLREAARRCPHGIFVPGRMQRYREVSAAIMKLLREYTPLVEPLSCDEAFLDVTGSEPLFG 122
Cdd:cd03468    33 AGRILACNAAARAAGVRPGMPLAEALALCPNLQVVEYDPEADARALQELALWLLRFTPLVALDGPDGLLLDVTGCLHLFG 112

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 123 PAETIARQIVDRiAAELQLSASVGVAPNKFLAKLASDLKKPRG-FVVIEEEDVLSFLAPLPInRIWGVGPKTTTQLQKMG 201
Cdd:cd03468   113 GEDALAASLRAA-LATLGLSARAGIADTPGAAWLLARAGGGRGvLRREALAAALVLLAPLPV-AALRLPPETVELLARLG 190

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198 202 LKTIGDLQELSLTYLRENLGDLGINLYRLARGIDDRPVETDMDIKSIGH--ETTFQEDTAdrEFLEETLWYLSEKVARRL 279
Cdd:cd03468   191 LRTLGDLAALPRAELARRFGLALLLRLDQAYGRDPEPLLFSPPPPAFDFrlELQLEEPIA--RGLLFPLRRLLEQLCAFL 268

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|
gi 1883531198 280 RRKGLVGKVITIKLRDHDFQTITRQTTLYQATDFEEVIYQTARQLAEANA 329
Cdd:cd03468   269 ALRGLGARRLSLTLFREDGRVTRVLVGLARPSRDDLPLLRLLRERLERLA 318
umuC PRK03609
translesion error-prone DNA polymerase V subunit UmuC;
13-219 1.82e-29

translesion error-prone DNA polymerase V subunit UmuC;


Pssm-ID: 179607 [Multi-domain]  Cd Length: 422  Bit Score: 117.94  E-value: 1.82e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  13 DMDAFYAAIEQLDNPAYRGKPVIVggLPHERGVVSTCSYEARKYGIRSAMP-LREAARRCPHGIFV-PGRMQRYREVSAA 90
Cdd:PRK03609    6 DVNSFYASCETVFRPDLRGKPVVV--LSNNDGCVIARSAEAKALGIKMGDPwFKQKDLFRRCGVVCfSSNYELYADMSNR 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1883531198  91 IMKLLREYTPLVEPLSCDEAFLDVTGSEPLFGPaETIARQIVDRIAAELQLSASVGVAPNKFLAKLASDLKKP-----RG 165
Cdd:PRK03609   84 VMSTLEELSPRVEIYSIDEAFCDLTGVRNCRDL-TDFGREIRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKwqrqtGG 162

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1883531198 166 FVVIEE-EDVLSFLAPLPINRIWGVGPKTTTQLQKMGLKTIGDLQELSLTYLREN 219
Cdd:PRK03609  163 VVDLSNlERQRKLLSLQPVEEVWGVGRRISKKLNAMGIKTALDLADTNIRFIRKH 217
IMS_HHH pfam11798
IMS family HHH motif; These proteins are involved in UV protection, eg.
 171-202 1.51e-07

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


Pssm-ID: 432081 [Multi-domain]  Cd Length: 32  Bit Score: 47.01  E-value: 1.51e-07
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1883531198 171 EEDVLSFLAPLPINRIWGVGPKTTTQLQKMGL 202
Cdd:pfam11798   1 PDDVPEFLWPLPISKIPGIGKKLAEKLKALGI 32
DNA_pol_lambd_f pfam10391
Fingers domain of DNA polymerase lambda; DNA polymerases catalyze the addition of dNMPs onto ...
 185-210 4.80e-03

Fingers domain of DNA polymerase lambda; DNA polymerases catalyze the addition of dNMPs onto the 3-prime ends of DNA chains. There is a general polymerase fold consisting of three subdomains that have been likened to the fingers, palm, and thumb of a right hand. DNA_pol_lambd_f is the central three-helical region of DNA polymerase lambda referred to as the F and G helices of the fingers domain. Contacts with DNA involve this conserved helix-hairpin-helix motif in the fingers region which interacts with the primer strand. This motif is common to several DNA binding proteins and confers a sequence-independent interaction with the DNA backbone.


Pssm-ID: 463069 [Multi-domain]  Cd Length: 51  Bit Score: 34.74  E-value: 4.80e-03
                          10        20
                  ....*....|....*....|....*.
gi 1883531198 185 RIWGVGPKTTTQLQKMGLKTIGDLQE 210
Cdd:pfam10391   5 GIYGVGPTTARKWYAQGYRTLDDLRE 30
RecG COG1200
RecG-like helicase [Replication, recombination and repair];
182-216 5.46e-03

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


Pssm-ID: 440813 [Multi-domain]  Cd Length: 684  Bit Score: 38.88  E-value: 5.46e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1883531198 182 PINRIWGVGPKTTTQLQKMGLKTIGDLqelsLTYL 216
Cdd:COG1200     7 PLTYLKGVGPKRAKLLAKLGIRTVGDL----LFHL 37
 
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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