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Conserved domains on  [gi|485688514|ref|WP_001322634|]
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translesion error-prone DNA polymerase V subunit UmuC [Rhodococcus qingshengii]

Protein Classification

DNA polymerase Y subunit UmuC family protein( domain architecture ID 1000143)

DNA polymerase Y subunit UmuC family protein similar to plasmid-encoded MucB protein, which is a DNA polymerase (pol RI) specialized for lesion bypass in the presence of MucA', RecA, and single strand-binding protein (SSB)

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PolY super family cl28996
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 1-316 0e+00

Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases that facilitate translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions. Unlike replicative polymerases, TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. The active sites of TLS polymerases are large and flexible to allow the accomodation of distorted bases. Most TLS polymerases are members of the Y-family, including Pol eta, Pol kappa/IV, Pol iota, Rev1, and Pol V, which is found exclusively in bacteria. In eukaryotes, the B-family polymerase Pol zeta also functions as a TLS polymerase. Expression of Y-family polymerases is often induced by DNA damage and is believed to be highly regulated. TLS is likely induced by the monoubiquitination of the replication clamp PCNA, which provides a scaffold for TLS polymerases to bind in order to access the lesion. Because of their high error rates, TLS polymerases are potential targets for cancer treatment and prevention.


The actual alignment was detected with superfamily member PRK03609:

Pssm-ID: 452909 [Multi-domain]  Cd Length: 422  Bit Score: 592.51  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   1 MFALADINSFYASCEKVFRPDLRNEPVIVLSNNDGCVIARSPEAKALGIRMGQPWFQVRQMRLEKKIHVFSSNYALYHSM 80
Cdd:PRK03609   1 MFALCDVNSFYASCETVFRPDLRGKPVVVLSNNDGCVIARSAEAKALGIKMGDPWFKQKDLFRRCGVVCFSSNYELYADM 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  81 SQRVMAVLESLSPAVEPYSIDEMFIDLRGINHCISPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKQW-PQF 159
Cdd:PRK03609  81 SNRVMSTLEELSPRVEIYSIDEAFCDLTGVRNCRDLTDFGREIRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKWqRQT 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 160 SGVVALTaeNRNRILKLLGLQPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKNFSVILERTVRELNGESSISLE 239
Cdd:PRK03609 161 GGVVDLS--NLERQRKLLSLQPVEEVWGVGRRISKKLNAMGIKTALDLADTNIRFIRKHFNVVLERTVRELRGEPCLSLE 238

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 485688514 240 EVPPAKQQIVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPFAVKEPCYSNAAVEKLSLP 316
Cdd:PRK03609 239 EFAPTKQEIVCSRSFGERITDYESMRQAICSYAARAAEKLRGEHQYCRFISTFVKTSPFALNEPYYGNSASVKLLTP 315
 
Name Accession Description Interval E-value
umuC PRK03609
translesion error-prone DNA polymerase V subunit UmuC;
1-316 0e+00

translesion error-prone DNA polymerase V subunit UmuC;


Pssm-ID: 179607 [Multi-domain]  Cd Length: 422  Bit Score: 592.51  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   1 MFALADINSFYASCEKVFRPDLRNEPVIVLSNNDGCVIARSPEAKALGIRMGQPWFQVRQMRLEKKIHVFSSNYALYHSM 80
Cdd:PRK03609   1 MFALCDVNSFYASCETVFRPDLRGKPVVVLSNNDGCVIARSAEAKALGIKMGDPWFKQKDLFRRCGVVCFSSNYELYADM 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  81 SQRVMAVLESLSPAVEPYSIDEMFIDLRGINHCISPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKQW-PQF 159
Cdd:PRK03609  81 SNRVMSTLEELSPRVEIYSIDEAFCDLTGVRNCRDLTDFGREIRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKWqRQT 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 160 SGVVALTaeNRNRILKLLGLQPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKNFSVILERTVRELNGESSISLE 239
Cdd:PRK03609 161 GGVVDLS--NLERQRKLLSLQPVEEVWGVGRRISKKLNAMGIKTALDLADTNIRFIRKHFNVVLERTVRELRGEPCLSLE 238

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 485688514 240 EVPPAKQQIVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPFAVKEPCYSNAAVEKLSLP 316
Cdd:PRK03609 239 EFAPTKQEIVCSRSFGERITDYESMRQAICSYAARAAEKLRGEHQYCRFISTFVKTSPFALNEPYYGNSASVKLLTP 315
PolY_Pol_V_umuC cd01700
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ...
 3-310 1.11e-171

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: 480.12  E-value: 1.11e-171
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   3 ALADINSFYASCEKVFRPDLRNEPVIVLSNNDGCVIARSPEAKALGIRMGQPWFQVRQMRLEKKIHVFSSNYALYHSMSQ 82
Cdd:cd01700    1 ALVDCNSFYASCERVFRPLLLGRPLVVLSNNDGCVIARSPEAKALGIKMGSPYFKVPDLLERHGVAVFSSNYALYGDMSR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  83 RVMAVLESLSPAVEPYSIDEMFIDLRGINHCISPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKQWPQFSGV 162
Cdd:cd01700   81 RIMSILERFSPDVEVYSIDESFLDLTGSLRFGDLEELARKIRRRILQETGIPVTVGIGPTKTLAKLANDLAKKKNPYGGV 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 163 VALTAENRNRilKLLGLQPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKNFSVILERTVRELNGESSISLEEVP 242
Cdd:cd01700  161 VDLTDEEVRD--KLLKILPVGDVWGIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKFGVVGERLVRELNGIDCLPLEEYP 238

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 485688514 243 PAKQQIVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPFAVKEPCYSNAAV 310
Cdd:cd01700  239 PPKKSIGSSRSFGRDVTDLDELKQALAEYAERAAEKLRRQKSVARTISVFIGTSGFSRQPKYYSATNT 306
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 1-298 6.40e-120

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 348.67  E-value: 6.40e-120
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   1 MFALADINSFYASCEKVFRPDLRNEPVIVLS-NNDGCVIARSPEAKALGIRMGQPWFQVRqmRLEKKIHVFSSNYALYHS 79
Cdd:COG0389    2 RILHVDMDAFYASVEQRDRPELRGKPVAVGGdNNRGVVAAASYEARAFGVRSGMPLFQAR--RLCPDLVVLPPDFELYRD 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  80 MSQRVMAVLESLSPAVEPYSIDEMFIDLRGINHCI-SPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKQwpq 158
Cdd:COG0389   80 VSRRVMAILERYTPLVEPLSIDEAFLDVTGSARLFgSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKP--- 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 159 fSGVVALTAENRNRILKLLglqPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKNFSVILERTVRELNGESSISL 238
Cdd:COG0389  157 -DGLTVIPPGEVAAFLAPL---PVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGKVGERLYRLARGIDPRPV 232

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 239 EEVPPAKqQIVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPF 298
Cdd:COG0389  233 EPRRPRK-SIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRTSDF 291
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 6-149 2.03e-45

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 151.57  E-value: 2.03e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514    6 DINSFYASCEKVFRPDLRNEPVIVLSNN-DGCVIARSPEAKALGIRMGQPWFQVRqmRLEKKIHVFSSNYALYHSMSQRV 84
Cdd:pfam00817   2 DMDAFFASVELLRDPELKGKPVAVGGGNgRGIVAAASYEARKYGVRSGMPVFEAK--KLCPNLIVVPPDLELYRRASRKI 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 485688514   85 MAVLESL-SPAVEPYSIDEMFIDLRGINHCI-SPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSA 149
Cdd:pfam00817  80 FEILRRFsTPKVEQASIDEAFLDLTGLEKLFgAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLA 146
 
Name Accession Description Interval E-value
umuC PRK03609
translesion error-prone DNA polymerase V subunit UmuC;
1-316 0e+00

translesion error-prone DNA polymerase V subunit UmuC;


Pssm-ID: 179607 [Multi-domain]  Cd Length: 422  Bit Score: 592.51  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   1 MFALADINSFYASCEKVFRPDLRNEPVIVLSNNDGCVIARSPEAKALGIRMGQPWFQVRQMRLEKKIHVFSSNYALYHSM 80
Cdd:PRK03609   1 MFALCDVNSFYASCETVFRPDLRGKPVVVLSNNDGCVIARSAEAKALGIKMGDPWFKQKDLFRRCGVVCFSSNYELYADM 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  81 SQRVMAVLESLSPAVEPYSIDEMFIDLRGINHCISPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKQW-PQF 159
Cdd:PRK03609  81 SNRVMSTLEELSPRVEIYSIDEAFCDLTGVRNCRDLTDFGREIRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKWqRQT 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 160 SGVVALTaeNRNRILKLLGLQPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKNFSVILERTVRELNGESSISLE 239
Cdd:PRK03609 161 GGVVDLS--NLERQRKLLSLQPVEEVWGVGRRISKKLNAMGIKTALDLADTNIRFIRKHFNVVLERTVRELRGEPCLSLE 238

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 485688514 240 EVPPAKQQIVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPFAVKEPCYSNAAVEKLSLP 316
Cdd:PRK03609 239 EFAPTKQEIVCSRSFGERITDYESMRQAICSYAARAAEKLRGEHQYCRFISTFVKTSPFALNEPYYGNSASVKLLTP 315
PolY_Pol_V_umuC cd01700
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ...
 3-310 1.11e-171

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: 480.12  E-value: 1.11e-171
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   3 ALADINSFYASCEKVFRPDLRNEPVIVLSNNDGCVIARSPEAKALGIRMGQPWFQVRQMRLEKKIHVFSSNYALYHSMSQ 82
Cdd:cd01700    1 ALVDCNSFYASCERVFRPLLLGRPLVVLSNNDGCVIARSPEAKALGIKMGSPYFKVPDLLERHGVAVFSSNYALYGDMSR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  83 RVMAVLESLSPAVEPYSIDEMFIDLRGINHCISPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKQWPQFSGV 162
Cdd:cd01700   81 RIMSILERFSPDVEVYSIDESFLDLTGSLRFGDLEELARKIRRRILQETGIPVTVGIGPTKTLAKLANDLAKKKNPYGGV 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 163 VALTAENRNRilKLLGLQPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKNFSVILERTVRELNGESSISLEEVP 242
Cdd:cd01700  161 VDLTDEEVRD--KLLKILPVGDVWGIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKFGVVGERLVRELNGIDCLPLEEYP 238

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 485688514 243 PAKQQIVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPFAVKEPCYSNAAV 310
Cdd:cd01700  239 PPKKSIGSSRSFGRDVTDLDELKQALAEYAERAAEKLRRQKSVARTISVFIGTSGFSRQPKYYSATNT 306
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 1-298 6.40e-120

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 348.67  E-value: 6.40e-120
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   1 MFALADINSFYASCEKVFRPDLRNEPVIVLS-NNDGCVIARSPEAKALGIRMGQPWFQVRqmRLEKKIHVFSSNYALYHS 79
Cdd:COG0389    2 RILHVDMDAFYASVEQRDRPELRGKPVAVGGdNNRGVVAAASYEARAFGVRSGMPLFQAR--RLCPDLVVLPPDFELYRD 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  80 MSQRVMAVLESLSPAVEPYSIDEMFIDLRGINHCI-SPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKQwpq 158
Cdd:COG0389   80 VSRRVMAILERYTPLVEPLSIDEAFLDVTGSARLFgSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKP--- 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 159 fSGVVALTAENRNRILKLLglqPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKNFSVILERTVRELNGESSISL 238
Cdd:COG0389  157 -DGLTVIPPGEVAAFLAPL---PVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGKVGERLYRLARGIDPRPV 232

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 239 EEVPPAKqQIVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPF 298
Cdd:COG0389  233 EPRRPRK-SIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRTSDF 291
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 6-301 2.91e-59

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: 193.51  E-value: 2.91e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   6 DINSFYASCEKVFRPDLRNEPVIVLSNNDGCVIAR-SPEAKALGIRMGQPWFQVRqmRLEKKIHVFSSNYALYHSMSQRV 84
Cdd:cd03586    4 DMDAFYASVEQRDNPELKGKPVAVGGSSDRGVVSTaSYEARKFGVRSAMPIFQAK--KLCPNLIFVPPRFDKYREVSRQI 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  85 MAVLESLSPAVEPYSIDEMFIDLRGINHCI-SPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSA-QWAtKqwPqfSGV 162
Cdd:cd03586   82 MEILREYTPLVEPLSIDEAYLDVTDYVRLFgSATEIAKEIRARIREETGLTASAGIAPNKFLAKIAsDLN-K--P--NGL 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 163 VALTAENrnrILKLLGLQPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKNFSVILERTVRELNGESSISLEEVP 242
Cdd:cd03586  157 TVIPPED---VEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGKSGRRLYELARGIDNRPVEPDR 233

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 485688514 243 PAKqQIVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPFAVK 301
Cdd:cd03586  234 ERK-SIGVERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTR 291
PolY cd00424
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 6-310 3.70e-51

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: 172.55  E-value: 3.70e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   6 DINSFYASCEKVFRPDLRNEPVIVLSNND--GCVIARSPEAKALGIRMGQPWFQVRqmRLEKKIHVFSSNYALYHSMSQR 83
Cdd:cd00424    4 DFDNFFASVEQLARPELKGRPVVVVPFNSdsTCVIACSYEARKYGVKRGMPVREAR--KMCPNLILVPARLDLYRRLSER 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  84 VMAVLESLSPAVEPYSIDEMFIDLRGINHCI-SPEFFGHQLREQVKSWTG-LTMGVGIAPTKTLAKSAqwATKQWPqfSG 161
Cdd:cd00424   82 LLSELEEVAPLVEVASIDELFLDLTGSARLLgLGSEVALRIKRHIAEQLGgITASIGIASNKLLAKLA--AKYAKP--DG 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 162 VVALTAENRNRILKLLglqPVGEVWGVGRRLTEKLNALGINTALQLAQANT-AFIRKNFSVILERTVRELNGESSISLEE 240
Cdd:cd00424  158 LTILDPEDLPGFLSKL---PLTDLPGIGAVTAKRLEAVGINPIGDLLAASPdALLALWGGVSGERLWYALRGIDDEPLSP 234

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 485688514 241 VPPaKQQIVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRT--SPFAVKEPCYSNAAV 310
Cdd:cd00424  235 PRP-RKSFSHERVLPRDSRNAEDARPLLRLLLEKLARRLRRDGRGATRLRLWLRTvdGRWSGHADIPSRSAP 305
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 6-149 2.03e-45

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 151.57  E-value: 2.03e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514    6 DINSFYASCEKVFRPDLRNEPVIVLSNN-DGCVIARSPEAKALGIRMGQPWFQVRqmRLEKKIHVFSSNYALYHSMSQRV 84
Cdd:pfam00817   2 DMDAFFASVELLRDPELKGKPVAVGGGNgRGIVAAASYEARKYGVRSGMPVFEAK--KLCPNLIVVPPDLELYRRASRKI 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 485688514   85 MAVLESL-SPAVEPYSIDEMFIDLRGINHCI-SPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSA 149
Cdd:pfam00817  80 FEILRRFsTPKVEQASIDEAFLDLTGLEKLFgAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLA 146
PRK03103 PRK03103
DNA polymerase IV; Reviewed
 4-228 2.67e-44

DNA polymerase IV; Reviewed


Pssm-ID: 235104 [Multi-domain]  Cd Length: 409  Bit Score: 156.32  E-value: 2.67e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   4 LADINSFYASCEKVFRPDLRNEPVIVL---SNNDGCVIARSPEAKALGIRMGQPWFQVRQmrLEKKIHVFSSNYALYHSM 80
Cdd:PRK03103   7 LVDMQSFYASVEKAANPELKGRPVIVSgdpERRSGVVLAACPLAKAYGVKTAERLWEAQQ--KCPDLVVVKPRMQRYIDV 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  81 SQRVMAVLESLSPAVEPYSIDEMFIDLRGINHCI-SPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSA--QWAtKQWP 157
Cdd:PRK03103  85 SLQITRILEDFTDLVEPFSIDEQFLDVTGSQKLFgSPLEIAQKIQQRIMRETGVYARVGIGPNKLLAKMAcdNFA-KKNP 163

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 485688514 158 qfSGVVALTAEN-RNRILKLlglqPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKNFSV---ILERTVR 228
Cdd:PRK03103 164 --DGLFTLDKEDvPADLWPL----PVRKLFGVGSRMEKHLRRMGIRTIGQLANTPLERLKKRWGIngeVLWRTAN 232
PRK01810 PRK01810
DNA polymerase IV; Validated
 6-298 1.54e-38

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 140.94  E-value: 1.54e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   6 DINSFYASCEKVFRPDLRNEPVIVLSN---NDGCVIARSPEAKALGIRMGQPWFQVRqmRLEKKIHVFSSNYALYHSMSQ 82
Cdd:PRK01810  11 DMNSFFASVEIAYDPSLQGKPLAVAGNekeRKGIIVTCSYEARAYGIRTTMPLWEAK--RLCPQLIVRRPNFDRYREASR 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  83 RVMAVLESLSPAVEPYSIDEMFIDLRGINHCISPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQwatkQWPQFSGV 162
Cdd:PRK01810  89 QMFQILSEFTPLVQPVSIDEGYLDITDCYALGSPLEIAKMIQQRLLTELQLPCSIGIAPNKFLAKMAS----DMKKPLGI 164

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 163 VALtaenRNR-ILKLLGLQPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKNFSVILERTVRELNGessISLEEV 241
Cdd:PRK01810 165 TVL----RKRdVPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLGINGVRLQRRANG---IDDRPV 237

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 485688514 242 PPAK----QQIVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPF 298
Cdd:PRK01810 238 DPEAiyqfKSVGNSTTLSHDMDEEKELLDVLRRLSKSVSKRLQKKTVVSYNVQIMIRYHDR 298
PRK03352 PRK03352
DNA polymerase IV; Validated
 6-325 2.33e-37

DNA polymerase IV; Validated


Pssm-ID: 179564 [Multi-domain]  Cd Length: 346  Bit Score: 136.69  E-value: 2.33e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   6 DINSFYASCEKVFRPDLRNEPVIVLSNND-----GCVIARSPEAKALGIRMGQPwfqvrqMRLE-KKI--HVF-SSNYAL 76
Cdd:PRK03352  11 DLDQFIAAVELLRRPELAGLPVIVGGNGDpteprKVVTCASYEARAFGVRAGMP------LRTAaRRCpdAVFlPSDPAA 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  77 YHSMSQRVMAVLESLSPAVEPYSIDEMFIDLRGINhcisPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKqw 156
Cdd:PRK03352  85 YDAASEEVMATLRDLGVPVEVWGWDEAFLGVDTDD----PEALAEEIRAAVLERTGLSCSVGIGDNKLRAKIATGFAK-- 158

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 157 PQfsGVVALTAENrnrILKLLGLQPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKNFSVILERTVREL---NGE 233
Cdd:PRK03352 159 PA--GVFRLTDAN---WMAVMGDRPTDALWGVGPKTAKRLAALGITTVADLAAADPAELAATFGPTTGPWLLLLargGGD 233

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 234 SSISLEEVPPAkqqivcSRS----FGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPFavkepcYSNAA 309
Cdd:PRK03352 234 TEVSAEPWVPR------SRSrevtFPQDLTDRAEVESAVRELARRVLDEVVAEGRPVTRVAVKVRTATF------YTRTK 301

                        330
                 ....*....|....*.
gi 485688514 310 VEKLSLPHRTAGTLLP 325
Cdd:PRK03352 302 IRKLPEPTTDPDVIEA 317
PRK03858 PRK03858
DNA polymerase IV; Validated
 5-322 4.45e-36

DNA polymerase IV; Validated


Pssm-ID: 179663 [Multi-domain]  Cd Length: 396  Bit Score: 134.34  E-value: 4.45e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   5 ADINSFYASCEKVFRPDLRNEPVIVlsnNDGCVIARSPEAKALGIRMGQPWFQVRqmRLEKKIHVFSSNYALYHSMSQRV 84
Cdd:PRK03858   9 ADLDSFYASVEQRDDPALRGRPVIV---GGGVVLAASYEAKAYGVRTAMGGRQAR--RLCPQAVVVPPRMSAYSRASKAV 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  85 MAVLESLSPAVEPYSIDEMFIDLRGINHcIS--PEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKqwPQFSGV 162
Cdd:PRK03858  84 FEVFRDTTPLVEGLSIDEAFLDVGGLRR-ISgtPVQIAARLRRRVREEVGLPITVGVARTKFLAKVASQVAK--PDGLLV 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 163 VALTAEnrnriLKLLGLQPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKnfsvILERTV-RELngeSSISLEEV 241
Cdd:PRK03858 161 VPPDRE-----LAFLHPLPVRRLWGVGPVTAAKLRAHGITTVGDVAELPESALVS----LLGPAAgRHL---HALAHNRD 228

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 242 PPA------KQQIVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPFAvkepcysnAAVEKLSL 315
Cdd:PRK03858 229 PRRvetgrrRRSVGAQRALGRGPNSPAEVDAVVVALVDRVARRMRAAGRTGRTVVLRLRFDDFT--------RATRSHTL 300


                 ....*..
gi 485688514 316 PHRTAGT 322
Cdd:PRK03858 301 PRPTAST 307
PRK03348 PRK03348
DNA polymerase IV; Provisional
 6-300 1.94e-34

DNA polymerase IV; Provisional


Pssm-ID: 235118 [Multi-domain]  Cd Length: 454  Bit Score: 130.82  E-value: 1.94e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   6 DINSFYASCEKVFRPDLRNEPVIV--LSNNdGCVIARSPEAKALGIRMGQPWFQVRqmRLEKKIHVF-SSNYALYHSMSQ 82
Cdd:PRK03348  11 DMDAFFASVEQLTRPTLRGRPVLVggLGGR-GVVAGASYEARVFGARSAMPMHQAR--RLVGNGAVVlPPRFVVYRAASR 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  83 RVMAVLESLSPAVEPYSIDEMFID---LRGinhcISPEF---FGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKqw 156
Cdd:PRK03348  88 RVFDTLRELSPVVEQLSFDEAFVEpaeLAG----ASAEEveaFAERLRARVREETGLPASVGAGSGKQIAKIASGLAK-- 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 157 PQFSGVVALTAEnrnriLKLLGLQPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKnfsvILERTV-REL----N 231
Cdd:PRK03348 162 PDGIRVVPPGEE-----RELLAPLPVRRLWGIGPVTEEKLHRLGIETIGDLAALSEAEVAN----LLGATVgPALhrlaR 232

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 485688514 232 GESSISLEEVPPAKqQIVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPFAV 300
Cdd:PRK03348 233 GIDDRPVAERAEAK-QISAESTFAVDLTTRAQLREAIERIAEHAHRRLLKDGRGARTVTVKLRKSDFST 300
PRK14133 PRK14133
DNA polymerase IV; Provisional
 6-300 4.39e-34

DNA polymerase IV; Provisional


Pssm-ID: 184529 [Multi-domain]  Cd Length: 347  Bit Score: 127.91  E-value: 4.39e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   6 DINSFYASCEKVFRPDLRNEPVIV--LSNNdGCVIARSPEAKALGIRMGQPWFQVRQmRLEKKIHVfSSNYALYHSMSQR 83
Cdd:PRK14133   9 DMDAFFASVEQMDNPKLKGKPVIVggISER-GVVSTCSYEARKYGVHSAMPVFMAKK-RCPHGIFL-PVRHERYKEVSKN 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  84 VMAVLESLSPAVEPYSIDEMFIDLRGINHciSPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQwatkQWPQFSGVV 163
Cdd:PRK14133  86 IFKILYEVTPIVEPVSIDEAYLDITNIKE--EPIKIAKYIKKKVKKETGLTLSVGISYNKFLAKLAS----DWNKPDGIK 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 164 ALTAENRNRILKLLglqPVGEVWGVGRRLTEKLNALGINTA---LQLAQAN-TAFIRKNFSVILERtVRelngesSISLE 239
Cdd:PRK14133 160 IITEDMIPDILKPL---PISKVHGIGKKSVEKLNNIGIYTIedlLKLSREFlIEYFGKFGVEIYER-IR------GIDYR 229

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 485688514 240 EVPPAKQQivcsRSFGERIT------DKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPFAV 300
Cdd:PRK14133 230 EVEVSRER----KSIGKETTlkkdtkDKEELKKYLKDFSNIISEELKKRNLYGKTVTVKIKTSDFQT 292
PRK02794 PRK02794
DNA polymerase IV; Provisional
 6-298 2.58e-26

DNA polymerase IV; Provisional


Pssm-ID: 179473 [Multi-domain]  Cd Length: 419  Bit Score: 107.71  E-value: 2.58e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   6 DINSFYASCEKVFRPDLRNEPVIVLSNNDG-----CVIARSpeakaLGIRMGQPWFQVRQMRLEKKihVFSSNYALYHSM 80
Cdd:PRK02794  42 DCDAFYASVEKRDNPELRDKPVIIGGGKRGvvstaCYIARI-----HGVRSAMPMFKALKLCPDAV--VIKPDMEKYVRV 114

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  81 SQRVMAVLESLSPAVEPYSIDEMFIDLRGIN--HCISPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKqwPQ 158
Cdd:PRK02794 115 GREVRAMMQALTPLVEPLSIDEAFLDLSGTErlHGAPPAVVLARFARRVEREIGITVSVGLSYNKFLAKIASDLDK--PR 192

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 159 -FSgvVALTAENRNrilkLLGLQPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKNFSVILERTVRELNGESSIS 237
Cdd:PRK02794 193 gFS--VIGRAEALA----FLAPKPVGIIWGVGPATAARLARDGIRTIGDLQRADEADLMRRFGSMGLRLWRLARGIDDRK 266

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 485688514 238 LEEVPPAKqQIVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPF 298
Cdd:PRK02794 267 VSPDREAK-SVSAETTFETDLSDFEDLEPILWRLSEKVSRRLKAAGLAGRTVTLKLKTADF 326
PRK01216 PRK01216
DNA polymerase IV; Validated
 1-202 1.09e-19

DNA polymerase IV; Validated


Pssm-ID: 179251 [Multi-domain]  Cd Length: 351  Bit Score: 88.31  E-value: 1.09e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   1 MFALADINSFYASCEKVFRPDLRNEPVIVL-----SNNDGCVIARSPEAKALGIRMGQPWfqVRQMRLEKKIHVFSSNYA 75
Cdd:PRK01216   2 IILFVDFDYFFAQVEEVLNPSLKGKPVVVCvysgrFEDSGAVATANYEARKLGIKAGMPI--VEAKKILPNAVYLPMRKE 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  76 LYHSMSQRVMAVLESLSPAVEPYSIDEMFIDL----RGINHCISpefFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAqw 151
Cdd:PRK01216  80 VYQQVSNRIMKLLREYSEKIEIASIDEAYLDIsdkvKNYQDAYN---LGLEIKNKILEKEKITVTVGISKNKVFAKIA-- 154

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 485688514 152 ATKQWPQFSGVValTAENRNRILKLLGlqpVGEVWGVGRRLTEKLNALGIN 202
Cdd:PRK01216 155 ADMAKPNGIKVI--DDEEVKRFINELD---IADIPGIGDITAEKLKKLGVN 200
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
 6-290 7.23e-19

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: 86.60  E-value: 7.23e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   6 DINSFYASCEKVFRPDLRNEPVIVLSN-NDGCVIAR-SPEAKALGIRMGQpWfqVRQMR-LEKKIHVFSSNYALYHSMSQ 82
Cdd:cd01701   53 DFDCFFVSVSIRNRPDLKGKPVAVCHGkGPNSEIAScNYEARSYGIKNGM-W--VGQAKkLCPQLVTLPYDFEAYEEVSL 129

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  83 RVMAVLESLSPAVEPYSIDEMFIDLRGINHCIS--PEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKqwPqfS 160
Cdd:cd01701  130 TFYEILASYTDNIEAVSCDEALIDITSLLEETYelPEELAEAIRNEIRETTGCSASVGIGPNILLARLATRKAK--P--D 205

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 161 GVVALTAENRNRILKLLglqPVGEVWGVGRRLTEKLNALGINTALQLAQantafiRKNFSVILERTVRELNGESSIS--- 237
Cdd:cd01701  206 GQYHLSAEKVEEFLSQL---KVGDLPGVGSSLAEKLVKLFGDTCGGLEL------RSKTKEKLQKVLGPKTGEKLYDycr 276

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 485688514 238 -LEEVPPAKQQ----IVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVT 290
Cdd:cd01701  277 gIDDRPVTGEKerksVSAEINYGIRFTNVDDVEQFLQRLSEELSKRLEESNVTGRQIT 334
PRK02406 PRK02406
DNA polymerase IV; Validated
 10-285 4.27e-18

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 83.63  E-value: 4.27e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  10 FYASCEKVFRPDLRNEPVIVLSNND--GCVIARSPEAKALGIRMGQPwfQVRQMRLEKKIHVFSSNYALYHSMSQRVMAV 87
Cdd:PRK02406   4 FYAAVEMRDNPELRGKPVAVGGSPGrrGVISTCNYEARKFGVRSAMP--TAQALKLCPDLIFVPGRFDVYKEVSRQIREI 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  88 LESLSPAVEPYSIDEMFIDLRGINHCI-SPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKqwP--QFsgVVa 164
Cdd:PRK02406  82 FRRYTDLIEPLSLDEAYLDVTDNKLCIgSATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNK--PngLF--VI- 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 165 lTAENRNRILKLLglqPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKNFSV-----------ILERTV---REL 230
Cdd:PRK02406 157 -TPEEVDAFLATL---PVEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFGKfgrrlyerargIDERPVkpdRER 232

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 485688514 231 NgesSISLEevppakqqivcsRSFGERITDKDAMHQA-------VVQYAERAAEKLRGERQY 285
Cdd:PRK02406 233 K---SVGVE------------RTFAEDLYDLEACLAElprlaekLERRLERAKPDKRIKTVG 279
PolY_Pol_eta cd01702
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ...
 3-293 3.41e-16

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: 78.12  E-value: 3.41e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   3 ALADINSFYASCEKVFRPDLRNEPVIVLSNNDgcVIARSPEAKALGIRmgqpwfqvRQMRLE--KK-------IHVFS-- 71
Cdd:cd01702    1 AHIDMDAFFAQVEQVRLGLLRNDPVAVVQWNS--IIAVSYAARAFGVT--------RFMTIDeaKKkcpdlilAHVATyk 70

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  72 --SNYALYHSM----------------SQRVMAVLESLSPAVEPYSIDEMFIDLrGINHCispeffgHQLREQVKSWTGL 133
Cdd:cd01702   71 kgEDEADYHENpsparhkvsldpyrraSRKILNILKRFGDVVEKASIDEAYLDL-GSRIV-------EEIRQQVYDELGY 142

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 134 TMGVGIAPTKTLAKSAQWATKQWPQfsgvvalTAENRNRILKLLGLQPVGEVWGVGRRL-TEKLNALGINTALQLAQ--A 210
Cdd:cd01702  143 TCSAGIAHNKMLAKLASGMNKPNAQ-------TILRNDAVASFLSSLPITSIRGLGGKLgEEIIDLLGLPTEGDVAGfrS 215

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 211 NTAFIRKNFSVILERTV-RELNGessISLEEVPP--AKQQIVCSRSFGERITDKDAM-HQAVVQYAERAAEKLRGER-QY 285
Cdd:cd01702  216 SESDLQEHFGEKLGEWLyNLLRG---IDHEPVKPrpLPKSMGSSKNFPGKTALSTEDvQHWLLVLASELNSRLEDDRyEN 292


                 ....*...
gi 485688514 286 CRQVTTFV 293
Cdd:cd01702  293 NRRPKTLV 300
IMS_C pfam11799
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
 245-298 1.08e-13

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: 66.04  E-value: 1.08e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 485688514  245 KQQIVCSRSFGERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPF 298
Cdd:pfam11799   1 RKSIGAERTFGRDLTDLEELREALLELAEELAERLRRQGLVARTVTVKIRYSDF 54
PolY_Pol_iota cd01703
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ...
 6-209 2.71e-12

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: 66.72  E-value: 2.71e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   6 DINSFYASCEKVFRPDLRNEPVIVLSNNdgCVIARSPEAKALGIRmgqpwfqvRQMRLE--KKI-----HVFSSNYALYH 78
Cdd:cd01703    4 DLDCFYAQVEEIRDPSLKSKPLGIQQKY--IVVTCNYEARRLGVK--------KLMSIKdaKEIcpdlvLVNGEDLTPFR 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  79 SMSQRVMAVLESLSPA--VEPYSIDEMFIDLRGINHCISPEFFGHqLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKQW 156
Cdd:cd01703   74 DMSKKVYRLLRSYSWNdrVERLGFDENFMDVTEMRLLVASHIAYE-MRERIENELGLTCCAGIASNKLLAKLVGSVNKPN 152

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|...
gi 485688514 157 PQfsgvVALTAENRNRILKLLGLQPVGEVWGVGRRLTEKLNALGINTALQLAQ 209
Cdd:cd01703  153 QQ----TTLLPPSCADLMDFMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQE 201
PTZ00205 PTZ00205
DNA polymerase kappa; Provisional
 6-317 1.94e-11

DNA polymerase kappa; Provisional


Pssm-ID: 140232 [Multi-domain]  Cd Length: 571  Bit Score: 64.65  E-value: 1.94e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514   6 DINSFYASCEKVFRPDLRNEPVIVlsnndGCVIARSPE---AKALGIRMGQPWFQvrQMRLEKKIHVFSSNYALYHSMSQ 82
Cdd:PTZ00205 139 DMDMFYAAVEIKKHPEYAAIPLAI-----GTMTMLQTAnyvARGRGIRQGMPGFL--ALKICPNLLILPPDFDAYNEESN 211

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  83 RVMAVLESLSPAVEPYSIDEMFIDLRG----INHCISPEFFGHQLREQVKSWTGLTMGVGIAPTKTLAKSAQWATKQwpq 158
Cdd:PTZ00205 212 TVRRIVAEYDPNYISFGLDELTLEVSAyierFEGTKTAEDVASELRVRVFGETKLTASAGIGPTAALAKIASNINKP--- 288

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 159 fSGVVALTAENRNRIL---KLLGLQPVGevwGVGRRLTEKLNALGINTALQLAQAntafiRKNFSVIL-ERTVRELNGeS 234
Cdd:PTZ00205 289 -NGQHDLNLHTRGDVMtyvRDLGLRSVP---GVGKVTEALLKGLGITTLSDIYNR-----RVELCYILhNNLFRFLLG-A 358

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 235 SISLEEVPPA----------------KQQIVCSRSFgERITDKDAMHQAVVQYAERAAEKLRGERQYCRQVTTFVRTSPF 298
Cdd:PTZ00205 359 SIGIMQWPDAataantencegatggqRKAISSERSF-TTPRTKEGLQEMVDTVFNGAYEEMRKSELMCRQISLTIRWASY 437

                        330       340       350
                 ....*....|....*....|....*....|
gi 485688514 299 AVKEPC-----YSN------AAVEKLSLPH 317
Cdd:PTZ00205 438 RYQQYTksliqYSDdsatlrRAVDGLLLPH 467
PolY_like cd03468
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ...
 19-290 9.25e-11

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: 62.01  E-value: 9.25e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  19 RPDLRNEPVIVLS-NNDGCVIARSPEAKALGIRMGQPwfqVRQMR-LEKKIHVFSSNYALYHSMSQRVMAVLESLSPAVE 96
Cdd:cd03468   17 RPADDEAPLAVVErKKAGRILACNAAARAAGVRPGMP---LAEALaLCPNLQVVEYDPEADARALQELALWLLRFTPLVA 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514  97 PYSIDEMFIDLRGINHcispeFFG------HQLREQVKSwTGLTMGVGIAPTKTLAKsaqWATKqwpqFSGVVALTAENR 170
Cdd:cd03468   94 LDGPDGLLLDVTGCLH-----LFGgedalaASLRAALAT-LGLSARAGIADTPGAAW---LLAR----AGGGRGVLRREA 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485688514 171 NRILKLLGLQPVGEVWGVGRRLTEKLNALGINTALQLAQANTAFIRKNFSVILERTVRELNGE--SSISLEEVPPAKQQI 248
Cdd:cd03468  161 LAAALVLLAPLPVAALRLPPETVELLARLGLRTLGDLAALPRAELARRFGLALLLRLDQAYGRdpEPLLFSPPPPAFDFR 240

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|..
gi 485688514 249 VcSRSFGERITdkDAMHQAVVQYAERAAEKLRGERQYCRQVT 290
Cdd:cd03468  241 L-ELQLEEPIA--RGLLFPLRRLLEQLCAFLALRGLGARRLS 279
IMS_HHH pfam11798
IMS family HHH motif; These proteins are involved in UV protection, eg.
 170-201 1.04e-04

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


Pssm-ID: 432081 [Multi-domain]  Cd Length: 32  Bit Score: 38.92  E-value: 1.04e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 485688514  170 RNRILKLLGLQPVGEVWGVGRRLTEKLNALGI 201
Cdd:pfam11798   1 PDDVPEFLWPLPISKIPGIGKKLAEKLKALGI 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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