Citrus Sinensis ID: 009729

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------
MQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKYFNGPDKFGSTSEQLPDNFIDAAPLSPSGSESYSTLNSTELQNELPGEQVWIEHSMADLGQLEMKANTWNGLDPSCSISKQTSGTESSSSLDQNKPQNRDDSRMRSVPIKSNQQEHKKSALKDKGASSILNFFKSGDLSCSSGNHDTEHAETLLPLGDCLSESNKKQVNIPKERLDNSTGDCLSESNQNQVNIPKERLAEAATTSTSTDRCGSDQIQQRSESWKLRIEEIDPSVIDELPKEIQDEIQAWLRPSKRPHRVKQGFTIADYFSPSKNR
ccEEEEEccEEEEcccHHHHHHHHHccccccccEEEEccccHHHHHccccccccccccHHHHHHHHHHHccccHHHHHHHcHHHHHHHHcccHHHHHHHHHHccccccccccccccEEEcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccEEEEEEccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccccccccEEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccHHHHHHccHHHHHHHHHHcccccccccccccccccccccccccc
ccHHHHcccEEEccccHHHHHHHHHcccccccccEEEccHHHHHHHHccccccccccccHHHHHHHHHHccccHHHHHHccHHHHHHHHcccHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEEEEEEcccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccEEEEEEcccccccccccccccccccccccccEEEEEEccccccccccccccccEcccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccEccccccccccccccccccccHHHHHcccccHHHccccHHHHcccccccHHHHccccccccccccccccccccccccccccccccccccccccccHccccccccccccccEEcccccccccccccccccccccccccccccccccccHHHccHHHHHHccHHHHHHHHHHHccccccccccccccccccccccccc
MQVLKETEFTCSAGIAHNKMLAKLAsgmnkpaqqttvpfssvkglldslpikkmkqlggklgtslqnelgvtTVGDLLKFSEdklqesygfntgtWLWNIargisgeevqarllpkshgsgksfpgpralKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLhasafkssdsdsrkkfpskscplrygtakiQEDTFNLFQAGLREFLGsfgvktqgshysgwRITALSVsaskivpvlsgTCSImkyfngpdkfgstseqlpdnfidaaplspsgsesystlnstelqnelpgeqvwIEHSMADLGQLEMkantwngldpscsiskqtsgtessssldqnkpqnrddsrmrsvpiksnqqeHKKSALKDKGASSILNFfksgdlscssgnhdtehaetllplgdclsesnkkqvnipkerldnstgdclsesnqnqvnipkerlaeaattststdrcgsdqiQQRSESWKLRIeeidpsvidelPKEIQDEIQAWlrpskrphrvkqgftiadyfspsknr
mqvlketeftcsagIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLhasafkssdsdsrkkfpskscplrygTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKYFNGPDKFGSTSEQLPDNFIDAAPLSPSGSESYSTLNSTELQNELPGEQVWIEHSMADLGQLEMKANTWNGLDPSCSISKqtsgtessssldqnkpqnrddsrmrsvpiksnqqehkksalkdkgaSSILNFFKSGDLSCSSGNHDTEHAETLLPLGDCLSESNKKqvnipkerldnstgdclsesnqnqvnipkerlaeaattststdrcgsdqiqQRSESWKLRIEEIdpsvidelpKEIQDEIQAwlrpskrphrvkqgftiadyfspsknr
MQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHasafkssdsdsrkkfpsksCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKYFNGPDKFGSTSEQLPDNFIDAAPLSPSGSESYSTLNSTELQNELPGEQVWIEHSMADLGQLEMKANTWNGLDPSCsiskqtsgtessssLDQNKPQNRDDSRMRSVPIKSNQQEHKKSALKDKGASSILNFFKSGDLSCSSGNHDTEHAETLLPLGDCLSESNKKQVNIPKERLDNSTGDCLSESNQNQVNIPKERLAEAATTSTSTDRCGSDQIQQRSESWKLRIEEIDPSVIDELPKEIQDEIQAWLRPSKRPHRVKQGFTIADYFSPSKNR
*********TCSAGIAH*************************KGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEV********************LKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTL*********************PLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKYFNGP********************************************VWIEHSMADLGQL******W********************************************************************************************************************************************************************VI*********EIQAWL***********GFTIAD********
MQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQA****KSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSD*R******SCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSA******************************************************************************************************************************************************************************************************************************************************PSVIDELPKEI*********************************
********FTCSAGIAHNKMLAKLAS********TTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASA**************KSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKYFNGPDKFGSTSEQLPDNFIDAAPLS**************LQNELPGEQVWIEHSMADLGQLEMKANTWNGLDPSCS**************************MRSVPI*************DKGASSILNFFKSGDLSCSSGNHDTEHAETLLPLGDCLSESNKKQVNIPKERLDNSTGDCLSESNQNQVNIPKERL***********************SWKLRIEEIDPSVIDELPKEIQDEIQAWLRPSKRPHRVKQGFTIADYFSPSKNR
MQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQ***********KSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKYFNGPD***********************************************************************************SLDQNKPQNRDDSRMRSVPIKSNQQEHKKS******ASSILNFFK******************************************************************************************LRIEEIDPSVIDELPKEIQDEIQAWLRP***********************
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MQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKYFNGPDKFGSTSEQLPDNFIDAAPLSPSGSESYSTLNSTELQNELPGEQVWIEHSMADLGQLEMKANTWNGLDPSCSISKQTSGTESSSSLDQNKPQNRDDSRMRSVPIKSNQQEHKKSALKDKGASSILNFFKSGDLSCSSGNHDTEHAETLLPLGDCLSESNKKQVNIPKERLDNSTGDCLSESNQNQVNIPKERLAEAATTSTSTDRCGSDQIQQRSESWKLRIEEIDPSVIDELPKEIQDEIQAWLRPSKRPHRVKQGFTIADYFSPSKNR
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query527 2.2.26 [Sep-21-2011]
Q9Y253713 DNA polymerase eta OS=Hom yes no 0.379 0.280 0.434 6e-41
Q9JJN0694 DNA polymerase eta OS=Mus yes no 0.455 0.345 0.397 4e-35
O42917 872 N-acetyltransferase eso1 yes no 0.296 0.178 0.322 1e-17
A3EWL31105 DNA repair protein REV1 O no no 0.426 0.203 0.285 3e-15
Q8DXW9364 DNA polymerase IV OS=Stre N/A no 0.292 0.423 0.345 2e-13
Q8E3I8364 DNA polymerase IV OS=Stre N/A no 0.292 0.423 0.345 2e-13
Q3JZG9364 DNA polymerase IV OS=Stre N/A no 0.292 0.423 0.345 2e-13
Q6GFG2356 DNA polymerase IV OS=Stap yes no 0.227 0.337 0.368 7e-13
P58964356 DNA polymerase IV OS=Stap yes no 0.227 0.337 0.368 8e-13
Q6G838356 DNA polymerase IV OS=Stap yes no 0.227 0.337 0.368 8e-13
>sp|Q9Y253|POLH_HUMAN DNA polymerase eta OS=Homo sapiens GN=POLH PE=1 SV=1 Back     alignment and function desciption
 Score =  169 bits (427), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 89/205 (43%), Positives = 121/205 (59%), Gaps = 5/205 (2%)

Query: 3   VLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLG 62
           + +ET F CSAGI+HNK+LAKLA G+NKP +QT V   SV  L   +PI+K++ LGGKLG
Sbjct: 204 IERETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLG 263

Query: 63  TSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGK 122
            S+   LG+  +G+L +F+E +LQ  +G   G+WL+ + RGI  + V+ R LPK+ G  K
Sbjct: 264 ASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWLYAMCRGIEHDPVKPRQLPKTIGCSK 323

Query: 123 SFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKK 182
           +FPG  AL T   VQ WL QL +EL ERL  D   N R+A  L +          D R  
Sbjct: 324 NFPGKTALATREQVQWWLLQLAQELEERLTKDRNDNDRVATQLVVSIRV----QGDKRLS 379

Query: 183 FPSKSCPL-RYGTAKIQEDTFNLFQ 206
              + C L RY   K+  D F + +
Sbjct: 380 SLRRCCALTRYDAHKMSHDAFTVIK 404
DNA polymerase specifically involved in DNA repair. Plays an important role in translesion synthesis, where the normal high fidelity DNA polymerases cannot proceed and DNA synthesis stalls. Plays an important role in the repair of UV-induced pyrimidine dimers. Depending on the context, it inserts the correct base, but causes frequent base transitions and transversions. May play a role in hypermutation at immunoglobulin genes. Forms a Schiff base with 5'-deoxyribose phosphate at abasic sites, but does not have lyase activity. Targets POLI to replication foci.
Homo sapiens (taxid: 9606)
EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 7
>sp|Q9JJN0|POLH_MOUSE DNA polymerase eta OS=Mus musculus GN=Polh PE=1 SV=1 Back     alignment and function description
>sp|O42917|ESO1_SCHPO N-acetyltransferase eso1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=eso1 PE=1 SV=1 Back     alignment and function description
>sp|A3EWL3|REV1_ARATH DNA repair protein REV1 OS=Arabidopsis thaliana GN=REV1 PE=2 SV=1 Back     alignment and function description
>sp|Q8DXW9|DPO4_STRA5 DNA polymerase IV OS=Streptococcus agalactiae serotype V (strain ATCC BAA-611 / 2603 V/R) GN=dinB PE=3 SV=1 Back     alignment and function description
>sp|Q8E3I8|DPO4_STRA3 DNA polymerase IV OS=Streptococcus agalactiae serotype III (strain NEM316) GN=dinB PE=3 SV=1 Back     alignment and function description
>sp|Q3JZG9|DPO4_STRA1 DNA polymerase IV OS=Streptococcus agalactiae serotype Ia (strain ATCC 27591 / A909 / CDC SS700) GN=dinB PE=3 SV=1 Back     alignment and function description
>sp|Q6GFG2|DPO4_STAAR DNA polymerase IV OS=Staphylococcus aureus (strain MRSA252) GN=dinB PE=3 SV=1 Back     alignment and function description
>sp|P58964|DPO4_STAAW DNA polymerase IV OS=Staphylococcus aureus (strain MW2) GN=dinB PE=3 SV=1 Back     alignment and function description
>sp|Q6G838|DPO4_STAAS DNA polymerase IV OS=Staphylococcus aureus (strain MSSA476) GN=dinB PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query527
297738026 773 unnamed protein product [Vitis vinifera] 0.986 0.672 0.533 1e-153
359472774 779 PREDICTED: DNA polymerase eta [Vitis vin 0.986 0.667 0.527 1e-151
356528144 703 PREDICTED: DNA polymerase eta-like [Glyc 0.931 0.698 0.543 1e-141
297791325 672 hypothetical protein ARALYDRAFT_494508 [ 0.886 0.694 0.512 1e-129
30694599 672 DNA polymerase eta subunit [Arabidopsis 0.884 0.693 0.511 1e-127
30694597588 DNA polymerase eta subunit [Arabidopsis 0.884 0.792 0.511 1e-127
23953869 672 putative translesion synthesis polymeras 0.884 0.693 0.507 1e-126
2660675 689 similar to DNA-damage-inducible protein 0.884 0.676 0.506 1e-125
358348538543 DNA polymerase eta [Medicago truncatula] 0.609 0.591 0.72 1e-125
449526991557 PREDICTED: DNA polymerase eta-like [Cucu 0.637 0.603 0.658 1e-122
>gi|297738026|emb|CBI27227.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  547 bits (1409), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 312/585 (53%), Positives = 378/585 (64%), Gaps = 65/585 (11%)

Query: 1   MQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGK 60
           MQV +ETEFTCSAGIAHNKMLAKLAS MNKPAQQT VP S V+GLL SLPIKKMKQLGGK
Sbjct: 196 MQVFRETEFTCSAGIAHNKMLAKLASAMNKPAQQTIVPLSCVRGLLGSLPIKKMKQLGGK 255

Query: 61  LGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGS 120
           LG+SLQ++LGV TVGDLL+FSE+KLQE YG NTGTWLWNIARGISGEEV++RLL KSHGS
Sbjct: 256 LGSSLQSDLGVNTVGDLLQFSEEKLQECYGINTGTWLWNIARGISGEEVESRLLSKSHGS 315

Query: 121 GKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSR 180
           GK+FPGP+ALKT+ASV++WLN+LCEEL ERL SDLEQNKRIAHTLTLHA A+KS+DSDS 
Sbjct: 316 GKTFPGPKALKTIASVENWLNELCEELDERLRSDLEQNKRIAHTLTLHARAYKSNDSDSH 375

Query: 181 KKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKI 240
           KKFPSKSCPLRYG AKIQED  NLFQAGLRE+LGS  VKT+ +  SGW ITALSVSASKI
Sbjct: 376 KKFPSKSCPLRYGIAKIQEDALNLFQAGLREYLGSCKVKTRANQCSGWSITALSVSASKI 435

Query: 241 VPVLSGTCSIMKYFNGPDKFGSTSEQLPDNFI-DAAPLSPSGSESYSTLNSTELQNELPG 299
           V + +GTCSIMKYF+G D   S+ +Q  D    +AA LS SGSESY  LN  E Q + PG
Sbjct: 436 VAIPTGTCSIMKYFHGQDLSSSSLKQPQDRSTEEAASLSHSGSESYLGLNPRETQKQFPG 495

Query: 300 EQVWIEHSMADLGQLEMKANTW--NGLDPSCSISKQTSGTESSSSLDQNKPQNRDDSRMR 357
           E+  I + M +L Q E K   W   G        K+ + T S S  +Q +P    D+++ 
Sbjct: 496 EETRINYDMPNLDQQEKKRKMWEDQGTPSILRFFKRHNPTSSLSEQEQVEPIQ--DTKVS 553

Query: 358 S------------------VPIKSNQQEHKKSALKDKGASSILNFFKSGDLSCSSGNHDT 399
           S                  +P +    E + +A +D  A+   + +K  D+ CS  +   
Sbjct: 554 SSSGLWTTSESCSETGQIQLPKEMMVAETESNARRDSSAAKRNDGYKIDDIDCSVMDELP 613

Query: 400 EHAETLLPLGDCLSESNKKQVNIPKE----------RLDNSTG-----------DC---- 434
              +  +      S  +  QV +PKE          R D+S             DC    
Sbjct: 614 PEIQEEV---QARSSEDLNQVQLPKEMMVAETESNARRDSSAAKRNDGYKIDDIDCSVMD 670

Query: 435 -----LSESNQ-------NQVNIPKERLAEAATTSTSTDRCGSDQIQQRSESWKLRIEEI 482
                + E  Q       NQV +PKE +  AA T  +  RC      +R E+W  +I+EI
Sbjct: 671 ELSPEIQEEVQAWSSEELNQVQLPKETM--AAETGPNDRRCSLGGGAERRETWSYKIDEI 728

Query: 483 DPSVIDELPKEIQDEIQAWLRPSKRPHRVKQGFTIADYFSPSKNR 527
           DPSV+DELP EI+ E+QAWLRP K     K+G +IA YFSP KN+
Sbjct: 729 DPSVMDELPPEIRAEVQAWLRPQKPAKTGKRGSSIAHYFSPMKNK 773

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359472774|ref|XP_002275643.2| PREDICTED: DNA polymerase eta [Vitis vinifera] Back     alignment and taxonomy information
>gi|356528144|ref|XP_003532665.1| PREDICTED: DNA polymerase eta-like [Glycine max] Back     alignment and taxonomy information
>gi|297791325|ref|XP_002863547.1| hypothetical protein ARALYDRAFT_494508 [Arabidopsis lyrata subsp. lyrata] gi|297309382|gb|EFH39806.1| hypothetical protein ARALYDRAFT_494508 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|30694599|ref|NP_568638.2| DNA polymerase eta subunit [Arabidopsis thaliana] gi|23954185|emb|CAC94893.1| putative DNA polymerase eta [Arabidopsis thaliana] gi|332007772|gb|AED95155.1| DNA polymerase eta subunit [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|30694597|ref|NP_851130.1| DNA polymerase eta subunit [Arabidopsis thaliana] gi|13430742|gb|AAK25993.1|AF360283_1 putative DNA-damage-inducible protein P [Arabidopsis thaliana] gi|21280927|gb|AAM44927.1| putative DNA-damage-inducible protein P [Arabidopsis thaliana] gi|332007771|gb|AED95154.1| DNA polymerase eta subunit [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|23953869|gb|AAN39011.1| putative translesion synthesis polymerase RAD30 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|2660675|gb|AAC79146.1| similar to DNA-damage-inducible protein P [Arabidopsis thaliana] gi|9758378|dbj|BAB08827.1| DNA-damage-inducible protein P [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|358348538|ref|XP_003638302.1| DNA polymerase eta [Medicago truncatula] gi|355504237|gb|AES85440.1| DNA polymerase eta [Medicago truncatula] Back     alignment and taxonomy information
>gi|449526991|ref|XP_004170496.1| PREDICTED: DNA polymerase eta-like [Cucumis sativus] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query527
TAIR|locus:2156309672 POLH "Y-family DNA polymerase 0.764 0.599 0.527 1.3e-111
ZFIN|ZDB-GENE-060421-4949749 polh "polymerase (DNA directed 0.472 0.332 0.394 1.7e-41
UNIPROTKB|E2RC81712 POLH "Uncharacterized protein" 0.468 0.346 0.383 6.3e-39
UNIPROTKB|F1NCM3657 POLH "Uncharacterized protein" 0.417 0.334 0.420 1e-38
UNIPROTKB|F1NAG6686 POLH "Uncharacterized protein" 0.417 0.320 0.420 1.3e-38
RGD|1309893689 Polh "polymerase (DNA directed 0.514 0.393 0.369 1.1e-37
MGI|MGI:1891457694 Polh "polymerase (DNA directed 0.512 0.389 0.364 2.3e-37
UNIPROTKB|B4DG64651 POLH "DNA polymerase eta" [Hom 0.375 0.304 0.428 4.5e-37
UNIPROTKB|Q9Y253713 POLH "DNA polymerase eta" [Hom 0.375 0.277 0.428 7.2e-37
UNIPROTKB|F1MZ79710 POLH "Uncharacterized protein" 0.309 0.229 0.484 1.7e-36
TAIR|locus:2156309 POLH "Y-family DNA polymerase H" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1010 (360.6 bits), Expect = 1.3e-111, Sum P(2) = 1.3e-111
 Identities = 224/425 (52%), Positives = 271/425 (63%)

Query:     2 QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKL 61
             QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQT VP+++V+ LL SLPIKKMKQLGGKL
Sbjct:   198 QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTVVPYAAVQELLSSLPIKKMKQLGGKL 257

Query:    62 GTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSG 121
             GTSLQ +LGV TVGDLL+FSE KLQE YG NTGTWLWNIARGISGEEVQ RLLPKSHGSG
Sbjct:   258 GTSLQTDLGVDTVGDLLQFSETKLQEHYGVNTGTWLWNIARGISGEEVQGRLLPKSHGSG 317

Query:   122 KSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHXXXXXXXXXXXXX 181
             K+FPGPRALK++++VQHWLNQL EELSERL SDLEQNKRIA TLTLH             
Sbjct:   318 KTFPGPRALKSLSTVQHWLNQLSEELSERLGSDLEQNKRIASTLTLHASAFRSKDSDSHK 377

Query:   182 XXXXXXCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIV 241
                   CP+RYG  KIQED FNLFQA LRE++GSFG+K QG+    WRIT LSVSASKIV
Sbjct:   378 KFPSKSCPMRYGVTKIQEDAFNLFQAALREYMGSFGIKPQGNKLETWRITGLSVSASKIV 437

Query:   242 PVLSGTCSIMKYFNGPDKFGSTSEQLPDNFIDA-APLSPSGSESYSTLNSTELQNELPGE 300
              + SGT SIM+YF       S S    D  +     ++ S SE  S   STE Q  +P  
Sbjct:   438 DIPSGTSSIMRYFQSQPTVPSRSA---DGCVQGNVAMTASASEGCSEQRSTETQAAMPEV 494

Query:   301 QVWIEHSMADLGQLEMKANTWNGLDP-SCXXXXXXXXXXXXXXLDQNKPQNRDDSRMRSV 359
                + +++ +    +   +  +  D  SC               + NK      ++ + +
Sbjct:   495 DTGVTYTLPNFENQDKDIDLVSEKDVVSCPSNEATDVSTQS---ESNK-----GTQTKKI 546

Query:   360 PIKSNQQEHKKSALKDKGASSILNFFKSGDLSCSSGNHDTEHAETLLPLGD---CLSESN 416
               K N  + K     ++G  SI++ FK+ + +  S   +T+   T+          S S+
Sbjct:   547 GRKMNNSKEK-----NRGMPSIVDIFKNYNATPPS-KQETQEDSTVSSASKRAKLSSSSH 600

Query:   417 KKQVN 421
               QVN
Sbjct:   601 NSQVN 605
GO:0003684 "damaged DNA binding" evidence=IEA
GO:0003887 "DNA-directed DNA polymerase activity" evidence=IEA;IDA
GO:0005634 "nucleus" evidence=ISM
GO:0006281 "DNA repair" evidence=IEA;ISS
GO:0005515 "protein binding" evidence=IPI
GO:0010224 "response to UV-B" evidence=IMP
GO:0042276 "error-prone translesion synthesis" evidence=IDA
GO:0006261 "DNA-dependent DNA replication" evidence=RCA
GO:0042732 "D-xylose metabolic process" evidence=RCA
ZFIN|ZDB-GENE-060421-4949 polh "polymerase (DNA directed), eta" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|E2RC81 POLH "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1NCM3 POLH "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|F1NAG6 POLH "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
RGD|1309893 Polh "polymerase (DNA directed), eta" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
MGI|MGI:1891457 Polh "polymerase (DNA directed), eta (RAD 30 related)" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|B4DG64 POLH "DNA polymerase eta" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|Q9Y253 POLH "DNA polymerase eta" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1MZ79 POLH "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer2.7.7LOW CONFIDENCE prediction!
4th Layer2.7.7.7LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query527
cd01702359 cd01702, PolY_Pol_eta, DNA Polymerase eta 1e-80
cd03586334 cd03586, PolY_Pol_IV_kappa, DNA Polymerase IV/Kapp 1e-38
cd00424343 cd00424, PolY, Y-family of DNA polymerases 4e-28
COG0389354 COG0389, DinP, Nucleotidyltransferase/DNA polymera 4e-27
PRK02406343 PRK02406, PRK02406, DNA polymerase IV; Validated 6e-26
cd01701404 cd01701, PolY_Rev1, DNA polymerase Rev1 3e-18
cd01703379 cd01703, PolY_Pol_iota, DNA Polymerase iota 7e-17
PRK03103409 PRK03103, PRK03103, DNA polymerase IV; Reviewed 1e-16
pfam11799136 pfam11799, IMS_C, impB/mucB/samB family C-terminal 2e-16
PRK03348454 PRK03348, PRK03348, DNA polymerase IV; Provisional 3e-16
PRK03352346 PRK03352, PRK03352, DNA polymerase IV; Validated 2e-15
PRK14133347 PRK14133, PRK14133, DNA polymerase IV; Provisional 3e-15
cd01700344 cd01700, PolY_Pol_V_umuC, umuC subunit of DNA Poly 7e-13
PRK01810407 PRK01810, PRK01810, DNA polymerase IV; Validated 7e-13
PRK02794419 PRK02794, PRK02794, DNA polymerase IV; Provisional 3e-12
PRK01216351 PRK01216, PRK01216, DNA polymerase IV; Validated 8e-11
PRK03858396 PRK03858, PRK03858, DNA polymerase IV; Validated 8e-08
cd03468335 cd03468, PolY_like, DNA Polymerase Y-family 3e-07
pfam00817148 pfam00817, IMS, impB/mucB/samB family 3e-06
PTZ00205571 PTZ00205, PTZ00205, DNA polymerase kappa; Provisio 0.001
>gnl|CDD|176456 cd01702, PolY_Pol_eta, DNA Polymerase eta Back     alignment and domain information 
 Score =  255 bits (654), Expect = 1e-80
 Identities = 109/241 (45%), Positives = 132/241 (54%), Gaps = 19/241 (7%)

Query: 2   QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKL 61
           QV  E  +TCSAGIAHNKMLAKLASGMNKP  QT +   +V   L SLPI  ++ LGGKL
Sbjct: 135 QVYDELGYTCSAGIAHNKMLAKLASGMNKPNAQTILRNDAVASFLSSLPITSIRGLGGKL 194

Query: 62  GTSLQNELGVTTVGDLLKF--SEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHG 119
           G  + + LG+ T GD+  F  SE  LQE +G   G WL+N+ RGI  E V+ R LPKS G
Sbjct: 195 GEEIIDLLGLPTEGDVAGFRSSESDLQEHFGEKLGEWLYNLLRGIDHEPVKPRPLPKSMG 254

Query: 120 SGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDS 179
           S K+FPG  AL T   VQHWL  L  EL+ RL  D  +N R   TL L            
Sbjct: 255 SSKNFPGKTALSTE-DVQHWLLVLASELNSRLEDDRYENNRRPKTLVLSLRQRGDG---- 309

Query: 180 RKKFPSKSCPLRYGTA-KIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSAS 238
                S+SC L    A KI +D F L +A   E LG             + +T LS+S +
Sbjct: 310 --VRRSRSCALPRYDAQKIVKDAFKLIKAINEEGLGLAWN---------YPLTLLSLSFT 358

Query: 239 K 239
           K
Sbjct: 359 K 359

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. Length = 359
>gnl|CDD|176459 cd03586, PolY_Pol_IV_kappa, DNA Polymerase IV/Kappa Back     alignment and domain information
>gnl|CDD|176453 cd00424, PolY, Y-family of DNA polymerases Back     alignment and domain information
>gnl|CDD|223466 COG0389, DinP, Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|235035 PRK02406, PRK02406, DNA polymerase IV; Validated Back     alignment and domain information
>gnl|CDD|176455 cd01701, PolY_Rev1, DNA polymerase Rev1 Back     alignment and domain information
>gnl|CDD|176457 cd01703, PolY_Pol_iota, DNA Polymerase iota Back     alignment and domain information
>gnl|CDD|235104 PRK03103, PRK03103, DNA polymerase IV; Reviewed Back     alignment and domain information
>gnl|CDD|221229 pfam11799, IMS_C, impB/mucB/samB family C-terminal Back     alignment and domain information
>gnl|CDD|235118 PRK03348, PRK03348, DNA polymerase IV; Provisional Back     alignment and domain information
>gnl|CDD|179564 PRK03352, PRK03352, DNA polymerase IV; Validated Back     alignment and domain information
>gnl|CDD|184529 PRK14133, PRK14133, DNA polymerase IV; Provisional Back     alignment and domain information
>gnl|CDD|176454 cd01700, PolY_Pol_V_umuC, umuC subunit of DNA Polymerase V Back     alignment and domain information
>gnl|CDD|179337 PRK01810, PRK01810, DNA polymerase IV; Validated Back     alignment and domain information
>gnl|CDD|179473 PRK02794, PRK02794, DNA polymerase IV; Provisional Back     alignment and domain information
>gnl|CDD|179251 PRK01216, PRK01216, DNA polymerase IV; Validated Back     alignment and domain information
>gnl|CDD|179663 PRK03858, PRK03858, DNA polymerase IV; Validated Back     alignment and domain information
>gnl|CDD|176458 cd03468, PolY_like, DNA Polymerase Y-family Back     alignment and domain information
>gnl|CDD|216135 pfam00817, IMS, impB/mucB/samB family Back     alignment and domain information
>gnl|CDD|140232 PTZ00205, PTZ00205, DNA polymerase kappa; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 527
cd01703379 PolY_Pol_iota DNA Polymerase iota. Pol iota, also 100.0
cd01702359 PolY_Pol_eta DNA Polymerase eta. Pol eta, also cal 100.0
PTZ00205571 DNA polymerase kappa; Provisional 100.0
PRK03348454 DNA polymerase IV; Provisional 100.0
cd01701404 PolY_Rev1 DNA polymerase Rev1. Rev1 is a translesi 100.0
PRK14133347 DNA polymerase IV; Provisional 100.0
cd00424343 PolY Y-family of DNA polymerases. Y-family DNA pol 100.0
PRK02794419 DNA polymerase IV; Provisional 100.0
PRK03609422 umuC DNA polymerase V subunit UmuC; Reviewed 100.0
PRK01810407 DNA polymerase IV; Validated 100.0
PRK01216351 DNA polymerase IV; Validated 100.0
PRK03858396 DNA polymerase IV; Validated 100.0
PRK03103409 DNA polymerase IV; Reviewed 100.0
PRK03352346 DNA polymerase IV; Validated 100.0
PRK02406343 DNA polymerase IV; Validated 100.0
cd03586334 PolY_Pol_IV_kappa DNA Polymerase IV/Kappa. Pol IV, 100.0
KOG2095656 consensus DNA polymerase iota/DNA damage inducible 100.0
cd01700344 PolY_Pol_V_umuC umuC subunit of DNA Polymerase V. 100.0
COG0389354 DinP Nucleotidyltransferase/DNA polymerase involve 100.0
KOG2094490 consensus Predicted DNA damage inducible protein [ 99.98
KOG20931016 consensus Translesion DNA polymerase - REV1 deoxyc 99.97
cd03468335 PolY_like DNA Polymerase Y-family. Y-family DNA po 99.96
PF11799127 IMS_C: impB/mucB/samB family C-terminal domain; In 99.5
PF1179832 IMS_HHH: IMS family HHH motif; InterPro: IPR024728 98.55
PRK04301317 radA DNA repair and recombination protein RadA; Va 98.1
TIGR02236310 recomb_radA DNA repair and recombination protein R 97.55
PF1452060 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU 97.0
PF1173193 Cdd1: Pathogenicity locus; InterPro: IPR021725 Cdd 96.53
PRK12766232 50S ribosomal protein L32e; Provisional 95.28
PF0499481 TfoX_C: TfoX C-terminal domain; InterPro: IPR00707 93.7
PF1039152 DNA_pol_lambd_f: Fingers domain of DNA polymerase 93.35
PRK02362737 ski2-like helicase; Provisional 92.98
COG3743133 Uncharacterized conserved protein [Function unknow 92.45
PF1282664 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS 91.61
PF0311866 RNA_pol_A_CTD: Bacterial RNA polymerase, alpha cha 91.56
PF14229122 DUF4332: Domain of unknown function (DUF4332) 90.73
PRK00254720 ski2-like helicase; Provisional 88.96
PRK01172674 ski2-like helicase; Provisional 88.69
COG2251474 Predicted nuclease (RecB family) [General function 86.32
PF14229122 DUF4332: Domain of unknown function (DUF4332) 86.0
PRK14667567 uvrC excinuclease ABC subunit C; Provisional 84.39
PRK00116192 ruvA Holliday junction DNA helicase RuvA; Reviewed 82.65
PRK08609570 hypothetical protein; Provisional 82.3
smart00483334 POLXc DNA polymerase X family. includes vertebrate 82.22
TIGR00596814 rad1 DNA repair protein (rad1). This family is bas 81.71
smart00611312 SEC63 Domain of unknown function in Sec63p, Brr2p 80.3
TIGR03491457 RecB family nuclease, putative, TM0106 family. Mem 80.25
>cd01703 PolY_Pol_iota DNA Polymerase iota Back     alignment and domain information 
Probab=100.00  E-value=2.2e-38  Score=333.82  Aligned_cols=230  Identities=27%  Similarity=0.397  Sum_probs=193.1

Q ss_pred             ccchhcCceEEEEEcccHHHHHHHhcCCCCCCeEEecc---CCHHhhcccCCCCcccCCcHHHHHHHHHhcCCCcHHHHh
Q 009729            2 QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPF---SSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLL   78 (527)
Q Consensus         2 ~I~~etGLt~SIGIA~NKlLAKLAS~~aKPnG~~vl~~---e~v~~fL~~LPI~kLpGIG~k~~~kL~~~lGI~TigDLa   78 (527)
                      +|+++||||||||||+||+|||||++++||+|+++|.+   +++.+||+++||++|||||++++++|. .+||.|+|||+
T Consensus       122 ~I~~~~Glt~siGIa~nk~lAKlas~~~KP~g~~~i~~~~~~~~~~fl~~lpv~~l~GiG~~~~~kL~-~~GI~tigdl~  200 (379)
T cd01703         122 RIENELGLTCCAGIASNKLLAKLVGSVNKPNQQTTLLPPSCADLMDFMDLHDLRKIPGIGYKTAAKLE-AHGISSVRDLQ  200 (379)
T ss_pred             HHHHHhCCeEEEEEcCCHHHHHHHhhhcCCCCeEEEcCCchHHHHHHhccCCccccCCcCHHHHHHHH-HcCCCcHHHHH
Confidence            57889999999999999999999999999999999876   466789999999999999999999995 99999999999


Q ss_pred             hcC---------------HHHHHHHhccchHHHHHHHHcCCcCccc-cccCCCccccccccCCCCCCCCCHHHHHHHHHH
Q 009729           79 KFS---------------EDKLQESYGFNTGTWLWNIARGISGEEV-QARLLPKSHGSGKSFPGPRALKTVASVQHWLNQ  142 (527)
Q Consensus        79 ~~~---------------~~~L~~~FG~~~G~~L~~~arGiD~~~V-~~~~~~KSIs~erTF~~~~di~~~eel~~~L~~  142 (527)
                      .++               ...|+++||...|.+||+.|+|+|+++| .+...+|||+.++||.. .++.+.++++.+|..
T Consensus       201 ~~~~~~~~~~~~~~~~~s~~~L~~~fG~~~g~~l~~~a~G~d~~~V~~~~~~~ksis~e~tf~~-~~~~~~~~~~~~l~~  279 (379)
T cd01703         201 EFSNRNRQTVGAAPSLLELLLMVKEFGEGIGQRIWKLLFGRDTSPVKPASDFPQQISIEDSYKK-CSLEEIREARNKIEE  279 (379)
T ss_pred             hCCcccccccccccccccHHHHHHHHCHHHHHHHHHHHCCCCCCccCCCCCCCceeEEeeccCC-CCCCCHHHHHHHHHH
Confidence            999               9999999997569999999999999999 55567899999999983 389999999999999


Q ss_pred             HHHHHHHHHHHhHHh----cCceeeEEEEEEEeccCCCCCCCCCcCcceeeCCCchhh-h---H-HhHHHHHHHHHHHHh
Q 009729          143 LCEELSERLCSDLEQ----NKRIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAK-I---Q-EDTFNLFQAGLREFL  213 (527)
Q Consensus       143 LaeeLa~RLr~dl~~----~~~~a~tLtL~iR~~~~~df~~~~~~~SkS~~Lp~~T~~-i---~-~~a~~Lf~aal~Ll~  213 (527)
                      |+++|+.||++++.+    .++.++||+|++|+.+.  ..+|..+.+++++++.+++. +   . .+...|++.++.||.
T Consensus       280 l~~~l~~rl~~~l~~~~~~~~~~~~tv~l~vr~~~~--~~~~~~~~sr~~~l~~~~~~~~~~~~~~~~~~i~~~~~~L~~  357 (379)
T cd01703         280 LLASLLERMKQDLQEVKAGDGRRPHTLRLTLRRYTS--TKKHYNRESKQAPIPSHVFQKLTGGNEIAARPIEKILMRLFR  357 (379)
T ss_pred             HHHHHHHHHHhhhhccchhcCeeeeEEEEEEEECCC--CCCccceeeeccccCchhhccccccchhhHHHHHHHHHHHHH
Confidence            999999999986533    68899999999999651  11112346899999988841 1   1 145679999999998


Q ss_pred             cccCccccCCccCCcceeEEEEEecC
Q 009729          214 GSFGVKTQGSHYSGWRITALSVSASK  239 (527)
Q Consensus       214 ~~~~~k~~~~~~~~~~IR~lGVsls~  239 (527)
                      ..++.    ....+.+||++||++++
T Consensus       358 ~~~~~----~~~~~~~irl~gv~~~~  379 (379)
T cd01703         358 ELVPP----KNVKGFNLTLLNVCFTN  379 (379)
T ss_pred             Hhccc----ccCCCCceEEEEEEeeC
Confidence            64321    00124589999999975

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.
>cd01702 PolY_Pol_eta DNA Polymerase eta Back     alignment and domain information
>PTZ00205 DNA polymerase kappa; Provisional Back     alignment and domain information
>PRK03348 DNA polymerase IV; Provisional Back     alignment and domain information
>cd01701 PolY_Rev1 DNA polymerase Rev1 Back     alignment and domain information
>PRK14133 DNA polymerase IV; Provisional Back     alignment and domain information
>cd00424 PolY Y-family of DNA polymerases Back     alignment and domain information
>PRK02794 DNA polymerase IV; Provisional Back     alignment and domain information
>PRK03609 umuC DNA polymerase V subunit UmuC; Reviewed Back     alignment and domain information
>PRK01810 DNA polymerase IV; Validated Back     alignment and domain information
>PRK01216 DNA polymerase IV; Validated Back     alignment and domain information
>PRK03858 DNA polymerase IV; Validated Back     alignment and domain information
>PRK03103 DNA polymerase IV; Reviewed Back     alignment and domain information
>PRK03352 DNA polymerase IV; Validated Back     alignment and domain information
>PRK02406 DNA polymerase IV; Validated Back     alignment and domain information
>cd03586 PolY_Pol_IV_kappa DNA Polymerase IV/Kappa Back     alignment and domain information
>KOG2095 consensus DNA polymerase iota/DNA damage inducible protein [Replication, recombination and repair] Back     alignment and domain information
>cd01700 PolY_Pol_V_umuC umuC subunit of DNA Polymerase V Back     alignment and domain information
>COG0389 DinP Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair] Back     alignment and domain information
>KOG2094 consensus Predicted DNA damage inducible protein [Replication, recombination and repair] Back     alignment and domain information
>KOG2093 consensus Translesion DNA polymerase - REV1 deoxycytidyl transferase [Replication, recombination and repair] Back     alignment and domain information
>cd03468 PolY_like DNA Polymerase Y-family Back     alignment and domain information
>PF11799 IMS_C: impB/mucB/samB family C-terminal domain; InterPro: IPR017961 This entry represents the little finger domain found in Y-family (lesion bypass) DNA polymerases Back     alignment and domain information
>PF11798 IMS_HHH: IMS family HHH motif; InterPro: IPR024728 This helix-hairpin-helix motif is found in proteins belonging to the type-Y family of DNA polymerases [] Back     alignment and domain information
>PRK04301 radA DNA repair and recombination protein RadA; Validated Back     alignment and domain information
>TIGR02236 recomb_radA DNA repair and recombination protein RadA Back     alignment and domain information
>PF14520 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU6_A 3AU2_A 3B0X_A 3B0Y_A 1SZP_C 3LDA_A 1WCN_A 2JZB_B 2ZTC_A Back     alignment and domain information
>PF11731 Cdd1: Pathogenicity locus; InterPro: IPR021725 Cdd1 is expressed as part of the pathogenicity locus operon in several different orders of bacteria [] Back     alignment and domain information
>PRK12766 50S ribosomal protein L32e; Provisional Back     alignment and domain information
>PF04994 TfoX_C: TfoX C-terminal domain; InterPro: IPR007077 This domain is found in a number of bacterial proteins including the TfoX gene product of Haemophilus influenzae Back     alignment and domain information
>PF10391 DNA_pol_lambd_f: Fingers domain of DNA polymerase lambda; InterPro: IPR018944 DNA polymerases catalyse the addition of dNMPs onto the 3-prime ends of DNA chains Back     alignment and domain information
>PRK02362 ski2-like helicase; Provisional Back     alignment and domain information
>COG3743 Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B Back     alignment and domain information
>PF03118 RNA_pol_A_CTD: Bacterial RNA polymerase, alpha chain C terminal domain; InterPro: IPR011260 The core of the bacterial RNA polymerase (RNAP) consists of four subunits, two alpha, a beta and a beta', which are conserved from bacteria to mammals Back     alignment and domain information
>PF14229 DUF4332: Domain of unknown function (DUF4332) Back     alignment and domain information
>PRK00254 ski2-like helicase; Provisional Back     alignment and domain information
>PRK01172 ski2-like helicase; Provisional Back     alignment and domain information
>COG2251 Predicted nuclease (RecB family) [General function prediction only] Back     alignment and domain information
>PF14229 DUF4332: Domain of unknown function (DUF4332) Back     alignment and domain information
>PRK14667 uvrC excinuclease ABC subunit C; Provisional Back     alignment and domain information
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed Back     alignment and domain information
>PRK08609 hypothetical protein; Provisional Back     alignment and domain information
>smart00483 POLXc DNA polymerase X family Back     alignment and domain information
>TIGR00596 rad1 DNA repair protein (rad1) Back     alignment and domain information
>smart00611 SEC63 Domain of unknown function in Sec63p, Brr2p and other proteins Back     alignment and domain information
>TIGR03491 RecB family nuclease, putative, TM0106 family Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query527
3mr6_A435 Human Dna Polymerase Eta - Dna Ternary Complex With 5e-40
3mr2_A435 Human Dna Polymerase Eta In Complex With Normal Dna 6e-40
3gv5_B420 Human Dna Polymerase Iota In Complex With T Templat 2e-09
2dpi_A420 Ternary Complex Of Hpoli With Dna And Dctp Length = 4e-09
2alz_A390 Ternary Complex Of Hpoli With Dna And Dctp Length = 4e-09
3h40_A389 Binary Complex Of Human Dna Polymerase Iota With Te 4e-09
4dez_A356 Structure Of Msdpo4 Length = 356 4e-09
1t3n_A388 Structure Of The Catalytic Core Of Dna Polymerase I 5e-09
3gqc_A504 Structure Of Human Rev1-Dna-Dntp Ternary Complex Le 1e-07
1t94_A459 Crystal Structure Of The Catalytic Core Of Human Dn 1e-07
3pzp_A517 Human Dna Polymerase Kappa Extending Opposite A Cis 1e-07
2oh2_A508 Ternary Complex Of Human Dna Polymerase Length = 50 2e-07
3v6h_A348 Replication Of N2,3-Ethenoguanine By Dna Polymerase 2e-07
2ago_A341 Fidelity Of Dpo4: Effect Of Metal Ions, Nucleotide 2e-07
3pvx_A347 Binary Complex Of Aflatoxin B1 Adduct Modified Dna 2e-07
2imw_P348 Mechanism Of Template-Independent Nucleotide Incorp 2e-07
3v6k_A347 Replication Of N2,3-Ethenoguanine By Dna Polymerase 3e-07
3pr4_A341 Dpo4 Y12a Mutant Incorporating Dadp Opposite Templa 3e-07
2uvv_A358 Crystal Structures Of Mutant Dpo4 Dna Polymerases W 3e-07
2rdi_A342 Snapshots Of A Y-family Dna Polymerase In Replicati 3e-07
2bq3_A358 Dna Adduct Bypass Polymerization By Sulfolobus Solf 3e-07
1jxl_A352 Crystal Structure Of A Y-Family Dna Polymerase In A 3e-07
4gc7_A359 Crystal Structure Of Dpo4 In Complex With S-mc-dadp 3e-07
2w9b_A358 Binary Complex Of Dpo4 Bound To N2,N2-Dimethyl- Deo 3e-07
2asd_A360 Oxog-Modified Insertion Ternary Complex Length = 36 3e-07
2uvr_A358 Crystal Structures Of Mutant Dpo4 Dna Polymerases W 3e-07
3gii_A341 Dpo4 Extension Ternary Complex With Disordered A Op 3e-07
4f4z_B361 Y-family Dna Polymerase Chimera Dpo4-dpo4-dbh Lengt 3e-07
3qz7_A360 T-3 Ternary Complex Of Dpo4 Length = 360 3e-07
4f4y_A362 Y-family Dna Polymerase Chimera Dbh-dpo4-dbh Length 7e-07
4f4w_A361 Y-family Dna Polymerase Chimera Dbh-dpo4-dpo4 #1 Le 7e-07
1jx4_A352 Crystal Structure Of A Y-Family Dna Polymerase In A 1e-06
1jih_A513 Yeast Dna Polymerase Eta Length = 513 1e-06
3mfh_A520 Dna Polymerase Eta In Complex With Undamaged Dna Le 1e-06
2wtf_A536 Dna Polymerase Eta In Complex With The Cis-Diammine 1e-06
2r8j_A554 Structure Of The Eukaryotic Dna Polymerase Eta In C 2e-06
3bq0_A354 Pre-insertion Binary Complex Of Dbh Dna Polymerase 3e-06
1k1q_A354 Crystal Structure Of A Dinb Family Error Prone Dna 4e-06
4f50_A361 Y-family Dna Polymerase Chimera Dbh-dbh-dpo4 Length 4e-06
1im4_A221 Crystal Structure Of A Dinb Homolog (Dbh) Lesion By 2e-04
>pdb|3MR6|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex With A Cpd 2bp Upstream Of The Active Site (Tt4) Length = 435 Back     alignment and structure 
Iteration: 1

 Score =  162 bits (409), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 87/203 (42%), Positives = 117/203 (57%), Gaps = 5/203 (2%)
Query: 5   KETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTS 64
           +ET F CSAGI+HNK+LAKLA G+NKP +QT V   SV  L   +PI+K++ LGGKLG S
Sbjct: 209 RETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGAS 268
Query: 65  LQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSF 124
           +   LG+  +G+L +F+E +LQ  +G   G+WL+ + RGI  + V+ R LPK+ G  K+F
Sbjct: 269 VIEILGIEYMGELTQFTESQLQSHFGEKNGSWLYAMCRGIEHDPVKPRQLPKTIGCSKNF 328
Query: 125 PGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHXXXXXXXXXXXXXXXX 184
           PG  AL T   VQ WL QL +EL ERL  D   N R+A  L +                 
Sbjct: 329 PGKTALATREQVQWWLLQLAQELEERLTKDRNDNDRVATQLVV----SIRVQGDKRLSSL 384
Query: 185 XXXCPL-RYGTAKIQEDTFNLFQ 206
              C L RY   K+  D F + +
Sbjct: 385 RRCCALTRYDAHKMSHDAFTVIK 407
>pdb|3MR2|A Chain A, Human Dna Polymerase Eta In Complex With Normal Dna And Incoming Nucleotide (Nrm) Length = 435 Back     alignment and structure
>pdb|3GV5|B Chain B, Human Dna Polymerase Iota In Complex With T Template Dna And Incoming Ddadp Length = 420 Back     alignment and structure
>pdb|2DPI|A Chain A, Ternary Complex Of Hpoli With Dna And Dctp Length = 420 Back     alignment and structure
>pdb|2ALZ|A Chain A, Ternary Complex Of Hpoli With Dna And Dctp Length = 390 Back     alignment and structure
>pdb|3H40|A Chain A, Binary Complex Of Human Dna Polymerase Iota With Template UT Length = 389 Back     alignment and structure
>pdb|4DEZ|A Chain A, Structure Of Msdpo4 Length = 356 Back     alignment and structure
>pdb|1T3N|A Chain A, Structure Of The Catalytic Core Of Dna Polymerase Iota In Complex With Dna And Dttp Length = 388 Back     alignment and structure
>pdb|3GQC|A Chain A, Structure Of Human Rev1-Dna-Dntp Ternary Complex Length = 504 Back     alignment and structure
>pdb|1T94|A Chain A, Crystal Structure Of The Catalytic Core Of Human Dna Polymerase Kappa Length = 459 Back     alignment and structure
>pdb|3PZP|A Chain A, Human Dna Polymerase Kappa Extending Opposite A Cis-Syn Thymine Dimer Length = 517 Back     alignment and structure
>pdb|2OH2|A Chain A, Ternary Complex Of Human Dna Polymerase Length = 508 Back     alignment and structure
>pdb|3V6H|A Chain A, Replication Of N2,3-Ethenoguanine By Dna Polymerases Length = 348 Back     alignment and structure
>pdb|2AGO|A Chain A, Fidelity Of Dpo4: Effect Of Metal Ions, Nucleotide Selection And Pyrophosphorolysis Length = 341 Back     alignment and structure
>pdb|3PVX|A Chain A, Binary Complex Of Aflatoxin B1 Adduct Modified Dna (Afb1-Fapy) With Dna Polymerase Iv Length = 347 Back     alignment and structure
>pdb|2IMW|P Chain P, Mechanism Of Template-Independent Nucleotide Incorporation Catalyzed By A Template-Dependent Dna Polymerase Length = 348 Back     alignment and structure
>pdb|3V6K|A Chain A, Replication Of N2,3-Ethenoguanine By Dna Polymerases Length = 347 Back     alignment and structure
>pdb|3PR4|A Chain A, Dpo4 Y12a Mutant Incorporating Dadp Opposite Template Dt Length = 341 Back     alignment and structure
>pdb|2UVV|A Chain A, Crystal Structures Of Mutant Dpo4 Dna Polymerases With 8- Oxog Containing Dna Template-Primer Constructs Length = 358 Back     alignment and structure
>pdb|2RDI|A Chain A, Snapshots Of A Y-family Dna Polymerase In Replication: Dpo4 In Apo And Binary/ternary Complex Forms Length = 342 Back     alignment and structure
>pdb|2BQ3|A Chain A, Dna Adduct Bypass Polymerization By Sulfolobus Solfataricus Dpo4. Analysis And Crystal Structures Of Multiple Base- Pair Substitution And Frameshift Products With The Adduct 1,N2-Ethenoguanine Length = 358 Back     alignment and structure
>pdb|1JXL|A Chain A, Crystal Structure Of A Y-Family Dna Polymerase In A Ternary Complex With Dna Substrates And An Incoming Nucleotide Length = 352 Back     alignment and structure
>pdb|4GC7|A Chain A, Crystal Structure Of Dpo4 In Complex With S-mc-dadp Opposite Dt Length = 359 Back     alignment and structure
>pdb|2W9B|A Chain A, Binary Complex Of Dpo4 Bound To N2,N2-Dimethyl- Deoxyguanosine Modified Dna Length = 358 Back     alignment and structure
>pdb|2ASD|A Chain A, Oxog-Modified Insertion Ternary Complex Length = 360 Back     alignment and structure
>pdb|2UVR|A Chain A, Crystal Structures Of Mutant Dpo4 Dna Polymerases With 8- Oxog Containing Dna Template-Primer Constructs Length = 358 Back     alignment and structure
>pdb|3GII|A Chain A, Dpo4 Extension Ternary Complex With Disordered A Opposite An Oxog In Anti Conformation Length = 341 Back     alignment and structure
>pdb|4F4Z|B Chain B, Y-family Dna Polymerase Chimera Dpo4-dpo4-dbh Length = 361 Back     alignment and structure
>pdb|3QZ7|A Chain A, T-3 Ternary Complex Of Dpo4 Length = 360 Back     alignment and structure
>pdb|4F4Y|A Chain A, Y-family Dna Polymerase Chimera Dbh-dpo4-dbh Length = 362 Back     alignment and structure
>pdb|4F4W|A Chain A, Y-family Dna Polymerase Chimera Dbh-dpo4-dpo4 #1 Length = 361 Back     alignment and structure
>pdb|1JX4|A Chain A, Crystal Structure Of A Y-Family Dna Polymerase In A Ternary Complex With Dna Substrates And An Incoming Nucleotide Length = 352 Back     alignment and structure
>pdb|1JIH|A Chain A, Yeast Dna Polymerase Eta Length = 513 Back     alignment and structure
>pdb|3MFH|A Chain A, Dna Polymerase Eta In Complex With Undamaged Dna Length = 520 Back     alignment and structure
>pdb|2WTF|A Chain A, Dna Polymerase Eta In Complex With The Cis-Diammineplatinum (Ii) 1,3-Gtg Intrastrand Cross-Link Length = 536 Back     alignment and structure
>pdb|2R8J|A Chain A, Structure Of The Eukaryotic Dna Polymerase Eta In Complex With 1,2- D(gpg)-cisplatin Containing Dna Length = 554 Back     alignment and structure
>pdb|3BQ0|A Chain A, Pre-insertion Binary Complex Of Dbh Dna Polymerase Length = 354 Back     alignment and structure
>pdb|1K1Q|A Chain A, Crystal Structure Of A Dinb Family Error Prone Dna Polymerase From Sulfolobus Solfataricus Length = 354 Back     alignment and structure
>pdb|4F50|A Chain A, Y-family Dna Polymerase Chimera Dbh-dbh-dpo4 Length = 361 Back     alignment and structure
>pdb|1IM4|A Chain A, Crystal Structure Of A Dinb Homolog (Dbh) Lesion Bypass Dna Polymerase Catalytic Fragment From Sulfolobus Solfataricus Length = 221 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query527
3osn_A420 DNA polymerase IOTA; hoogsteen base PAIR, protein- 5e-70
4ecq_A435 DNA polymerase ETA; transferase-DNA complex; HET: 1e-66
3mfi_A520 DNA polymerase ETA; DNA damage, DNA repair, DNA re 7e-51
1t94_A459 Polymerase (DNA directed) kappa; replication, DNA 4e-39
1jx4_A352 DNA polymerase IV (family Y); protein-DNA complex, 4e-38
3gqc_A504 DNA repair protein REV1; protein-DNA complex, DNA 2e-35
3bq0_A354 POL IV, DBH, DNA polymerase IV; Y-family, lesion b 2e-35
3pzp_A517 DNA polymerase kappa; DNA nucleotidyltransferase, 4e-35
2aq4_A434 DNA repair protein REV1; polymerase, PAD, N-digit, 9e-31
1im4_A221 DBH; DNA polymerase PALM, thumb, fingers, helix-ha 3e-23
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-07
>3osn_A DNA polymerase IOTA; hoogsteen base PAIR, protein-DNA complex, Y-family DNA polym translesion synthesis, nucleoside triphosphate; HET: DNA DOC 6OG TTP; 1.90A {Homo sapiens} PDB: 2dpj_A* 2fll_A* 2fln_A* 2flp_A* 3epg_A* 3epi_A* 2dpi_A* 3g6v_A* 3g6y_A* 3g6x_A* 3gv7_B* 3gv8_B* 3ngd_A* 3gv5_B* 3q8p_B* 3q8q_B* 3q8r_B* 3q8s_B* 3h4d_A* 3h4b_A* ... Length = 420 Back     alignment and structure
 Score =  229 bits (585), Expect = 5e-70
 Identities = 59/247 (23%), Positives = 106/247 (42%), Gaps = 15/247 (6%)

Query: 2   QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLP-IKKMKQLGGK 60
            +  +   T  AG+A NK+LAKL SG+ KP QQT +   S + L+ SL  IK++  +G K
Sbjct: 186 AMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNHIKEIPGIGYK 245

Query: 61  LGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGS 120
               L+  LG+ +V DL  FS   L++  G +    +  ++ G     V     P+S   
Sbjct: 246 TAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQSFSE 304

Query: 121 GKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSR 180
             SF       +    ++ + +L   L  R    + Q+ R  HT+ L     +   S+  
Sbjct: 305 EDSFKK---CSSEVEAKNKIEELLASLLNR----VCQDGRKPHTVRLI---IRRYSSEKH 354

Query: 181 KKFPSKSCPL-RYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASK 239
               S+ CP+  +   K+    +++    +   +  F  +   +    + +T LSV    
Sbjct: 355 YGRESRQCPIPSHVIQKLGTGNYDVMTPMVDILMKLF--RNMVNVKMPFHLTLLSVCFCN 412

Query: 240 IVPVLSG 246
           +  + + 
Sbjct: 413 LKALNTA 419
>4ecq_A DNA polymerase ETA; transferase-DNA complex; HET: DNA DTP; 1.50A {Homo sapiens} PDB: 3mr2_A* 3mr4_A* 3mr5_A* 3si8_A* 4dl2_A* 4dl3_A* 4dl4_A* 4dl5_A* 4dl6_A* 4dl7_A* 3mr3_A* 4ecr_A* 4ecs_A* 4ect_A* 4ecu_A* 4ecv_A* 4ecw_A* 4ecx_A* 4ecy_A* 4ecz_A* ... Length = 435 Back     alignment and structure
>3mfi_A DNA polymerase ETA; DNA damage, DNA repair, DNA replication, DNA synthesis, NUCL binding, magnesium; HET: DNA DOC TTD DTP; 1.76A {Saccharomyces cerevisiae} PDB: 3mfh_A* 3oha_A* 3ohb_A* 2r8j_A* 2r8k_A* 2wtf_A* 2xgp_A* 2xgq_A* 1jih_A* Length = 520 Back     alignment and structure
>1t94_A Polymerase (DNA directed) kappa; replication, DNA repair, Y-family DNA polymerase, translesion DNA synthesis, lesion bypass; 2.40A {Homo sapiens} SCOP: d.240.1.1 e.8.1.7 PDB: 2oh2_A* 2w7o_A* 2w7p_A* 3hed_A* 3in5_A* Length = 459 Back     alignment and structure
>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family, transferase-D complex; HET: DNA MSE ADI; 1.70A {Sulfolobus solfataricus} SCOP: d.240.1.1 e.8.1.7 PDB: 1jxl_A* 1n48_A* 1n56_A* 1ryr_A* 1rys_A* 1s0m_A* 1s0n_A* 1s0o_A* 1s10_A* 1s97_A* 1s9f_A* 2ia6_A* 2ibk_A* 2r8g_A* 2r8h_A* 2r8i_A* 2rdj_A* 3fds_A* 3m9m_B* 3m9n_B* ... Length = 352 Back     alignment and structure
>3gqc_A DNA repair protein REV1; protein-DNA complex, DNA damage, DNA repair, DNA synthesis, binding, magnesium, metal-binding; HET: DNA DOC DCP; 2.50A {Homo sapiens} Length = 504 Back     alignment and structure
>3bq0_A POL IV, DBH, DNA polymerase IV; Y-family, lesion bypass; HET: DNA; 2.60A {Sulfolobus acidocaldarius} SCOP: d.240.1.1 e.8.1.7 PDB: 3bq1_A* 3bq2_A* 1k1q_A 1k1s_A Length = 354 Back     alignment and structure
>3pzp_A DNA polymerase kappa; DNA nucleotidyltransferase, DNA binding nucleotide binding M binding, nucleus; HET: DNA TTD DTP; 3.34A {Homo sapiens} Length = 517 Back     alignment and structure
>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop, transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces cerevisiae} PDB: 3bjy_A* 3osp_A* Length = 434 Back     alignment and structure
>1im4_A DBH; DNA polymerase PALM, thumb, fingers, helix-hairpin-helix, fidelity, processivity, transferase; 2.30A {Sulfolobus solfataricus} SCOP: e.8.1.7 Length = 221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query527
4dez_A356 POL IV 1, DNA polymerase IV 1; Y-family, transfera 100.0
3osn_A420 DNA polymerase IOTA; hoogsteen base PAIR, protein- 100.0
3gqc_A504 DNA repair protein REV1; protein-DNA complex, DNA 100.0
1jx4_A352 DNA polymerase IV (family Y); protein-DNA complex, 100.0
4f4y_A362 POL IV, DNA polymerase IV; Y-family polymerase, tr 100.0
3bq0_A354 POL IV, DBH, DNA polymerase IV; Y-family, lesion b 100.0
4ecq_A435 DNA polymerase ETA; transferase-DNA complex; HET: 100.0
3pzp_A517 DNA polymerase kappa; DNA nucleotidyltransferase, 100.0
3mfi_A520 DNA polymerase ETA; DNA damage, DNA repair, DNA re 100.0
2aq4_A434 DNA repair protein REV1; polymerase, PAD, N-digit, 100.0
1t94_A459 Polymerase (DNA directed) kappa; replication, DNA 100.0
1im4_A221 DBH; DNA polymerase PALM, thumb, fingers, helix-ha 99.82
1unn_C115 POL IV, DNA polymerase IV; beta-clamp, translesion 99.27
2a1j_A63 DNA repair endonuclease XPF; XPF, xeroderma pigmen 96.6
1wcn_A70 Transcription elongation protein NUSA; RNA-binding 96.32
2kwv_A48 RAD30 homolog B, DNA polymerase IOTA; ubiquitin-bi 95.73
1z00_B84 DNA repair endonuclease XPF; helix-hairpin-helix, 95.61
3bqs_A93 Uncharacterized protein; 10114F, NYSGXRC, PSI-2, s 94.79
3mab_A93 Uncharacterized protein; NYSGXRC, PSI-2, structura 94.39
2a1j_B91 DNA excision repair protein ERCC-1; XPF, xeroderma 92.95
1kft_A78 UVRC, excinuclease ABC subunit C; helix-hairpin-he 92.78
1z00_A89 DNA excision repair protein ERCC-1; helix-hairpin- 92.71
1z3e_B73 DNA-directed RNA polymerase alpha chain; bacterial 92.54
3gfk_B79 DNA-directed RNA polymerase subunit alpha; protein 91.75
1b22_A114 DNA repair protein RAD51; DNA binding, riken struc 91.37
1vq8_Y241 50S ribosomal protein L32E; ribosome 50S, protein- 90.8
2khu_A108 Immunoglobulin G-binding protein G, DNA polymerase 90.11
2nrt_A220 Uvrabc system protein C; UVRC, endonuclease, RNAse 90.0
3k4g_A86 DNA-directed RNA polymerase subunit alpha; bacteri 87.89
2va8_A715 SSO2462, SKI2-type helicase; hydrolase, DNA repair 87.67
2kz3_A83 Putative uncharacterized protein RAD51L3; RAD51D, 86.73
1pzn_A349 RAD51, DNA repair and recombination protein RAD51, 86.36
1x2i_A75 HEF helicase/nuclease; alpha helix, helix-hairpin- 85.96
2i1q_A322 DNA repair and recombination protein RADA; ATPase, 85.76
1coo_A98 RNA polymerase alpha subunit; transcription regula 84.95
1ci4_A89 Protein (barrier-TO-autointegration factor (BAF) ) 84.69
3im1_A328 Protein SNU246, PRE-mRNA-splicing helicase BRR2; A 84.01
2p6r_A702 Afuhel308 helicase; protein-DNA complex, SF2 helic 83.25
2q0z_X339 Protein Pro2281; SEC63, SEC, NESG, HR1979, structu 82.45
1ixr_A191 Holliday junction DNA helicase RUVA; heterooligome 81.41
2zj8_A720 DNA helicase, putative SKI2-type helicase; RECA fo 80.62
>4dez_A POL IV 1, DNA polymerase IV 1; Y-family, transferase; HET: DNA; 2.60A {Mycobacterium smegmatis} Back     alignment and structure
Probab=100.00  E-value=2.4e-42  Score=358.10  Aligned_cols=215  Identities=23%  Similarity=0.309  Sum_probs=105.8

Q ss_pred             ccchhcCceEEEEEcccHHHHHHHhcCCCCCCeEEeccCCHHhhcccCCCCcccCCcHHHHHHHHHhcCCCcHHHHhhcC
Q 009729            2 QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFS   81 (527)
Q Consensus         2 ~I~~etGLt~SIGIA~NKlLAKLAS~~aKPnG~~vl~~e~v~~fL~~LPI~kLpGIG~k~~~kL~~~lGI~TigDLa~~~   81 (527)
                      +|+++||||||||||+||+|||||++++||+|+++++++++.+||+++||++|||||++++++|. .+||+|++||++++
T Consensus       131 ~i~~~~gl~~siGIa~nk~lAKlAs~~~Kp~g~~~i~~~~~~~~L~~lpv~~l~GiG~~~~~~L~-~~GI~Ti~dL~~~~  209 (356)
T 4dez_A          131 VVAAETGLSCSVGISDNKQRAKVATGFAKPAGIYVLTEANWMTVMGDRPPDALWGVGPKTTKKLA-AMGITTVADLAVTD  209 (356)
T ss_dssp             HHHHHHSCCEEEEEESSHHHHHHHHHHHCSSCEEECCTTTHHHHHTTSCGGGSTTCCHHHHHHHH-HTTCCSHHHHHTSC
T ss_pred             HHHHHhCCccccchhccHHHHHHHHHHhhhcCcccccchhhhhhhhcCcHHHHcCCchhHHHHHH-HcCCCeecccccCC
Confidence            58899999999999999999999999999999999999999999999999999999999999995 99999999999999


Q ss_pred             HHHHHHHhccchHHHHHHHHcCCcCcccccc-CCCccccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhHHhcCc
Q 009729           82 EDKLQESYGFNTGTWLWNIARGISGEEVQAR-LLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKR  160 (527)
Q Consensus        82 ~~~L~~~FG~~~G~~L~~~arGiD~~~V~~~-~~~KSIs~erTF~~~~di~~~eel~~~L~~LaeeLa~RLr~dl~~~~~  160 (527)
                      ...|+++||...|.+||++|+|+|+++|.+. ..+|||++++||+  .++.+.++++.+|..|++++++||++    +++
T Consensus       210 ~~~L~~~fG~~~g~~l~~~a~G~d~~~v~~~~~~~ksi~~~~tf~--~~~~~~~~l~~~l~~la~~~~~rLr~----~~~  283 (356)
T 4dez_A          210 PSVLTTAFGPSTGLWLLLLAKGGGDTEVSSEPWVPRSRSHVVTFP--QDLTERREMDSAVRDLALQTLAEIVE----QGR  283 (356)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHTTCCCCCCCC--------------------------------------------------
T ss_pred             HHHHHHHhCChHHHHHHHHHcCCCcccccccccccccccccccCC--CcCCCHHHHHHHHHHHHHHHHHHHHH----cCC
Confidence            9999999997689999999999999999875 5689999999999  78999999999999999999999997    799


Q ss_pred             eeeEEEEEEEeccCCCCCCCCCcCcceeeCCCchhhhHHhHHHHHHHHHHHHhcccCccccCCccCCcceeEEEEEecCC
Q 009729          161 IAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKI  240 (527)
Q Consensus       161 ~a~tLtL~iR~~~~~df~~~~~~~SkS~~Lp~~T~~i~~~a~~Lf~aal~Ll~~~~~~k~~~~~~~~~~IR~lGVsls~L  240 (527)
                      .+++|+|+||+.+   |.+    .+++.+|+.||+    ++..|+++|.++|..         .+.+.+||+|||++++|
T Consensus       284 ~~~~l~v~ir~~~---f~~----~t~~~~l~~pt~----d~~~i~~~a~~ll~~---------~~~~~~vRliGV~ls~l  343 (356)
T 4dez_A          284 IVTRVAVTVRTST---FYT----RTKIRKLPAPST----DAGQIVDTALAVLDQ---------FELDRPVRLLGVRLELA  343 (356)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ceeEEEEEEEeCC---CeE----EEEEEECCcccC----CHHHHHHHHHHHHHh---------ccCCCCEEEEEEEECCC
Confidence            9999999999854   333    478889999984    778899999988874         34567899999999999


Q ss_pred             ccc
Q 009729          241 VPV  243 (527)
Q Consensus       241 ~~~  243 (527)
                      .++
T Consensus       344 ~d~  346 (356)
T 4dez_A          344 MDD  346 (356)
T ss_dssp             ---
T ss_pred             CCC
Confidence            875
>3osn_A DNA polymerase IOTA; hoogsteen base PAIR, protein-DNA complex, Y-family DNA polym translesion synthesis, nucleoside triphosphate; HET: DNA DOC 6OG TTP; 1.90A {Homo sapiens} PDB: 2dpj_A* 2fll_A* 2fln_A* 2flp_A* 3epg_A* 3epi_A* 2dpi_A* 3g6v_A* 3g6y_A* 3g6x_A* 3gv7_B* 3gv8_B* 3ngd_A* 3gv5_B* 3q8p_B* 3q8q_B* 3q8r_B* 3q8s_B* 4ebc_A* 4ebd_A* ... Back     alignment and structure
>3gqc_A DNA repair protein REV1; protein-DNA complex, DNA damage, DNA repair, DNA synthesis, binding, magnesium, metal-binding; HET: DNA DOC DCP; 2.50A {Homo sapiens} Back     alignment and structure
>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family, transferase-D complex; HET: DNA MSE ADI; 1.70A {Sulfolobus solfataricus} SCOP: d.240.1.1 e.8.1.7 PDB: 1jxl_A* 1n48_A* 1n56_A* 1ryr_A* 1rys_A* 1s0m_A* 1s0n_A* 1s0o_A* 1s10_A* 1s97_A* 1s9f_A* 2ia6_A* 2ibk_A* 2r8g_A* 2r8h_A* 2r8i_A* 2rdj_A* 3fds_A* 3m9m_B* 3m9n_B* ... Back     alignment and structure
>4f4y_A POL IV, DNA polymerase IV; Y-family polymerase, transferase-DNA complex; HET: DNA DCP; 2.34A {Sulfolobus acidocaldarius} PDB: 3bq0_A* 3bq1_A* 3bq2_A* 4hyk_A* 1k1q_A 1k1s_A Back     alignment and structure
>3bq0_A POL IV, DBH, DNA polymerase IV; Y-family, lesion bypass; HET: DNA; 2.60A {Sulfolobus acidocaldarius} SCOP: d.240.1.1 e.8.1.7 PDB: 3bq1_A* 3bq2_A* 1k1q_A 1k1s_A Back     alignment and structure
>4ecq_A DNA polymerase ETA; transferase-DNA complex; HET: DNA DTP; 1.50A {Homo sapiens} PDB: 3mr2_A* 3mr4_A* 3mr5_A* 3si8_A* 4dl2_A* 4dl3_A* 4dl4_A* 4dl5_A* 4dl6_A* 4dl7_A* 3mr3_A* 4ecr_A* 4ecs_A* 4ect_A* 4ecu_A* 4ecv_A* 4ecw_A* 4ecx_A* 4ecy_A* 4ecz_A* ... Back     alignment and structure
>3pzp_A DNA polymerase kappa; DNA nucleotidyltransferase, DNA binding nucleotide binding M binding, nucleus; HET: DNA TTD DTP; 3.34A {Homo sapiens} Back     alignment and structure
>3mfi_A DNA polymerase ETA; DNA damage, DNA repair, DNA replication, DNA synthesis, NUCL binding, magnesium; HET: DNA DOC TTD DTP; 1.76A {Saccharomyces cerevisiae} PDB: 3mfh_A* 3oha_A* 3ohb_A* 2r8j_A* 2r8k_A* 2wtf_A* 2xgp_A* 2xgq_A* 1jih_A* Back     alignment and structure
>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop, transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces cerevisiae} PDB: 3bjy_A* 3osp_A* Back     alignment and structure
>1t94_A Polymerase (DNA directed) kappa; replication, DNA repair, Y-family DNA polymerase, translesion DNA synthesis, lesion bypass; 2.40A {Homo sapiens} SCOP: d.240.1.1 e.8.1.7 PDB: 2oh2_A* 2w7o_A* 2w7p_A* 3hed_A* 3in5_A* Back     alignment and structure
>1im4_A DBH; DNA polymerase PALM, thumb, fingers, helix-hairpin-helix, fidelity, processivity, transferase; 2.30A {Sulfolobus solfataricus} SCOP: e.8.1.7 Back     alignment and structure
>1unn_C POL IV, DNA polymerase IV; beta-clamp, translesion, transferase, DNA-directed D polymerase, DNA replication; HET: DNA; 1.9A {Escherichia coli} SCOP: d.240.1.1 Back     alignment and structure
>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 PDB: 2kn7_A* Back     alignment and structure
>1wcn_A Transcription elongation protein NUSA; RNA-binding protein, escherichia coli NUSA, transcription regulation, regulation of RNA binding; NMR {Escherichia coli} PDB: 2jzb_B Back     alignment and structure
>2kwv_A RAD30 homolog B, DNA polymerase IOTA; ubiquitin-binding motif, UBM, TL protein binding-signaling protein complex; HET: DNA; NMR {Mus musculus} Back     alignment and structure
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A* Back     alignment and structure
>3mab_A Uncharacterized protein; NYSGXRC, PSI-2, structural genomics; 1.42A {Listeria monocytogenes} PDB: 3bqt_A Back     alignment and structure
>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 Back     alignment and structure
>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} SCOP: a.60.2.3 Back     alignment and structure
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 Back     alignment and structure
>1z3e_B DNA-directed RNA polymerase alpha chain; bacterial transcription regulation, disulfide stress; 1.50A {Bacillus subtilis} SCOP: a.60.3.1 PDB: 3ihq_B Back     alignment and structure
>3gfk_B DNA-directed RNA polymerase subunit alpha; protein-protein complex, cytoplasm, redox-active center, stress response, transcription; 2.30A {Bacillus subtilis} SCOP: a.60.3.1 Back     alignment and structure
>1b22_A DNA repair protein RAD51; DNA binding, riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.60.4.1 Back     alignment and structure
>1vq8_Y 50S ribosomal protein L32E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.9.2.1 PDB: 1vq4_Y* 1vq5_Y* 1vq6_Y* 1vq7_Y* 1s72_Y* 1vq9_Y* 1vqk_Y* 1vql_Y* 1vqm_Y* 1vqn_Y* 1vqo_Y* 1vqp_Y* 1yhq_Y* 1yi2_Y* 1yij_Y* 1yit_Y* 1yj9_Y* 1yjn_Y* 1yjw_Y* 2otj_Y* ... Back     alignment and structure
>2khu_A Immunoglobulin G-binding protein G, DNA polymerase IOTA; UBM, ubiquitin-binding domain, translesion synthesis, TLS, ubiquitin-binding protein; NMR {Streptococcus SP} PDB: 2khw_A 2l0f_B* Back     alignment and structure
>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB: 2nrv_A 2nrw_A 2nrx_A 2nrz_A Back     alignment and structure
>3k4g_A DNA-directed RNA polymerase subunit alpha; bacterial transcription regulation, DNA-directed RNA polymer nucleotidyltransferase; HET: MLY; 2.05A {Escherichia coli k-12} SCOP: a.60.3.1 PDB: 3n4m_B* 1lb2_B* 3n97_B* 1xs9_D Back     alignment and structure
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus} Back     alignment and structure
>2kz3_A Putative uncharacterized protein RAD51L3; RAD51D, homologous recombination, unknown function; NMR {Homo sapiens} Back     alignment and structure
>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11 Back     alignment and structure
>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} SCOP: a.60.2.5 Back     alignment and structure
>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A* Back     alignment and structure
>1coo_A RNA polymerase alpha subunit; transcription regulation, nucleotidyl transferase; NMR {Escherichia coli} SCOP: a.60.3.1 PDB: 2jzb_A Back     alignment and structure
>1ci4_A Protein (barrier-TO-autointegration factor (BAF) ); DNA binding protein, retroviral integration, preintegration complex; 1.90A {Homo sapiens} SCOP: a.60.5.1 PDB: 1qck_A 2bzf_A 2ezx_A 2ezy_A 2ezz_A 2odg_A Back     alignment and structure
>3im1_A Protein SNU246, PRE-mRNA-splicing helicase BRR2; ATPase, RNA helicase, rnpase, RNA unwindase, molecular model mRNA splicing; 1.65A {Saccharomyces cerevisiae} PDB: 3im2_A* 3hib_A Back     alignment and structure
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A Back     alignment and structure
>2q0z_X Protein Pro2281; SEC63, SEC, NESG, HR1979, structural genomics, translocase, northeast structural genomics consortium, PSI-2; 2.00A {Homo sapiens} SCOP: a.289.1.1 b.1.18.22 Back     alignment and structure
>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} SCOP: a.60.2.1 b.40.4.2 Back     alignment and structure
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 527
d1t94a2333 e.8.1.7 (A:75-407) DNA polymerase kappa {Human (Ho 2e-22
d1zeta2273 e.8.1.7 (A:27-299) DNA polymerase iota {Human (Hom 1e-21
d1jiha1120 d.240.1.1 (A:390-509) DNA polymerase eta {Baker's 9e-21
d1jiha2389 e.8.1.7 (A:1-389) DNA polymerase eta {Baker's yeas 2e-19
d1jx4a2240 e.8.1.7 (A:1-240) DinB homolog (DBH) {Archaeon Sul 6e-18
d1im4a_209 e.8.1.7 (A:) DinB homolog (DBH) {Archaeon Sulfolob 1e-12
>d1t94a2 e.8.1.7 (A:75-407) DNA polymerase kappa {Human (Homo sapiens) [TaxId: 9606]} Length = 333 Back     information, alignment and structure

class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Lesion bypass DNA polymerase (Y-family), catalytic domain
domain: DNA polymerase kappa
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 96.1 bits (238), Expect = 2e-22
 Identities = 31/110 (28%), Positives = 53/110 (48%), Gaps = 4/110 (3%)

Query: 2   QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFS--SVKGLLDSLPIKKMKQLGG 59
           ++ ++T  T SAGIA N MLAK+ S  NKP  Q  +  +  +V   +  LPI+K+  +G 
Sbjct: 226 RIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILPNRQAVMDFIKDLPIRKVSGIGK 285

Query: 60  KLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEV 109
                L   LG+ T  +L +     L   +   +  +  +I+ G+    +
Sbjct: 286 VTEKML-KALGIITCTELYQ-QRALLSLLFSETSWHYFLHISLGLGSTHL 333
>d1zeta2 e.8.1.7 (A:27-299) DNA polymerase iota {Human (Homo sapiens) [TaxId: 9606]} Length = 273 Back     information, alignment and structure
>d1jiha1 d.240.1.1 (A:390-509) DNA polymerase eta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 120 Back     information, alignment and structure
>d1jiha2 e.8.1.7 (A:1-389) DNA polymerase eta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 389 Back     information, alignment and structure
>d1jx4a2 e.8.1.7 (A:1-240) DinB homolog (DBH) {Archaeon Sulfolobus solfataricus, DNA polymerase IV [TaxId: 2287]} Length = 240 Back     information, alignment and structure
>d1im4a_ e.8.1.7 (A:) DinB homolog (DBH) {Archaeon Sulfolobus solfataricus [TaxId: 2287]} Length = 209 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query527
d1zeta2273 DNA polymerase iota {Human (Homo sapiens) [TaxId: 99.94
d1jx4a2240 DinB homolog (DBH) {Archaeon Sulfolobus solfataric 99.93
d1t94a2333 DNA polymerase kappa {Human (Homo sapiens) [TaxId: 99.93
d1jiha2389 DNA polymerase eta {Baker's yeast (Saccharomyces c 99.83
d1im4a_209 DinB homolog (DBH) {Archaeon Sulfolobus solfataric 99.81
d1jx4a1101 DinB homolog (DBH) {Archaeon Sulfolobus solfataric 99.47
d1t94a1105 DNA polymerase kappa {Human (Homo sapiens) [TaxId: 99.44
d1k1sa1105 DinB homolog (DBH) {Archaeon Sulfolobus solfataric 99.39
d1zeta1115 DNA polymerase iota {Human (Homo sapiens) [TaxId: 99.37
d1unnc_111 DNA polymerase IV {Escherichia coli [TaxId: 562]} 99.36
d1jiha1120 DNA polymerase eta {Baker's yeast (Saccharomyces c 99.34
d2i1qa160 DNA repair protein Rad51, N-terminal domain {Archa 97.61
d1pzna161 DNA repair protein Rad51, N-terminal domain {Archa 96.96
d1kfta_56 Excinuclease UvrC C-terminal domain {Escherichia c 96.66
d1szpa164 DNA repair protein Rad51, N-terminal domain {Baker 96.29
d2a1ja162 DNA repair endonuclease XPF {Human (Homo sapiens) 96.23
d2bgwa170 DNA repair endonuclease XPF {Aeropyrum pernix [Tax 95.53
d1x2ia168 ATP-dependent RNA helicase PF2015 {Pyrococcus furi 94.89
d2fmpa257 DNA polymerase beta {Human (Homo sapiens) [TaxId: 94.81
d2a1jb178 DNA excision repair protein ERCC-1 {Human (Homo sa 94.79
d1b22a_70 DNA repair protein Rad51, N-terminal domain {Human 94.37
d2bcqa257 DNA polymerase lambda {Human (Homo sapiens) [TaxId 94.35
d1jmsa360 Terminal deoxynucleotidyl transferase {Mouse (Mus 93.68
d1gm5a2180 RecG "wedge" domain {Thermotoga maritima [TaxId: 2 92.89
d2p6ra2198 Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22 92.57
d1doqa_69 C-terminal domain of RNA polymerase alpha subunit 90.19
d1z3eb167 C-terminal domain of RNA polymerase alpha subunit 87.64
d1lb2b_72 C-terminal domain of RNA polymerase alpha subunit 84.92
d1ci4a_89 Barrier-to-autointegration factor, BAF {Human (Hom 83.01
d2q0zx1176 Protein pro2281 {Human (Homo sapiens) [TaxId: 9606 82.15
>d1zeta2 e.8.1.7 (A:27-299) DNA polymerase iota {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Lesion bypass DNA polymerase (Y-family), catalytic domain
domain: DNA polymerase iota
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=5e-28  Score=240.32  Aligned_cols=113  Identities=34%  Similarity=0.459  Sum_probs=107.7

Q ss_pred             ccchhcCceEEEEEcccHHHHHHHhcCCCCCCeEEeccCCHHhhcccC-CCCcccCCcHHHHHHHHHhcCCCcHHHHhhc
Q 009729            2 QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSL-PIKKMKQLGGKLGTSLQNELGVTTVGDLLKF   80 (527)
Q Consensus         2 ~I~~etGLt~SIGIA~NKlLAKLAS~~aKPnG~~vl~~e~v~~fL~~L-PI~kLpGIG~k~~~kL~~~lGI~TigDLa~~   80 (527)
                      +|++++|||||||||+||+|||||++++||||+++|.++++..||+++ ||++|||||++++++|. .+||+||+||+++
T Consensus       160 ~I~~~~g~~~svGIa~nk~lAKlAs~~~KP~g~~vi~~~~~~~~l~~l~pv~~l~GiG~~~~~~L~-~~GI~ti~dl~~~  238 (273)
T d1zeta2         160 AMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNHIKEIPGIGYKTAKCLE-ALGINSVRDLQTF  238 (273)
T ss_dssp             HHHHHHCCCEEEEEESSHHHHHHHHTSSCSSCEEECCGGGHHHHHTTCSSGGGSTTCCHHHHHHHH-TTTCCSHHHHHHS
T ss_pred             HHHHHhCCCeEeeecCcHHHHHHHhhccccccccchhhhhHHHHHhcCcchHHhcCCCHHHHHHHH-HhCCCcHHHHhcC
Confidence            578999999999999999999999999999999999999999999998 79999999999999995 9999999999999


Q ss_pred             CHHHHHHHhccchHHHHHHHHcCCcCccccccCCC
Q 009729           81 SEDKLQESYGFNTGTWLWNIARGISGEEVQARLLP  115 (527)
Q Consensus        81 ~~~~L~~~FG~~~G~~L~~~arGiD~~~V~~~~~~  115 (527)
                      +...|+++||.+.|.+||+.|+|+|.+||.+..+|
T Consensus       239 ~~~~L~~~fG~~~g~~l~~~a~G~D~~pV~~~~~P  273 (273)
T d1zeta2         239 SPKILEKELGISVAQRIQKLSFGEDNSPVILSGPP  273 (273)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHTTCCCCCCCCCCSC
T ss_pred             CHHHHHHHHCHHHHHHHHHHHcCcCCCCCCCCCCC
Confidence            99999999998679999999999999999876554
>d1jx4a2 e.8.1.7 (A:1-240) DinB homolog (DBH) {Archaeon Sulfolobus solfataricus, DNA polymerase IV [TaxId: 2287]} Back     information, alignment and structure
>d1t94a2 e.8.1.7 (A:75-407) DNA polymerase kappa {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jiha2 e.8.1.7 (A:1-389) DNA polymerase eta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1im4a_ e.8.1.7 (A:) DinB homolog (DBH) {Archaeon Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d1jx4a1 d.240.1.1 (A:241-341) DinB homolog (DBH) {Archaeon Sulfolobus solfataricus, DNA polymerase IV [TaxId: 2287]} Back     information, alignment and structure
>d1t94a1 d.240.1.1 (A:411-515) DNA polymerase kappa {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1k1sa1 d.240.1.1 (A:240-344) DinB homolog (DBH) {Archaeon Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d1zeta1 d.240.1.1 (A:300-414) DNA polymerase iota {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1unnc_ d.240.1.1 (C:) DNA polymerase IV {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1jiha1 d.240.1.1 (A:390-509) DNA polymerase eta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2i1qa1 a.60.4.1 (A:5-64) DNA repair protein Rad51, N-terminal domain {Archaeon Methanococcus voltae [TaxId: 2188]} Back     information, alignment and structure
>d1pzna1 a.60.4.1 (A:35-95) DNA repair protein Rad51, N-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1kfta_ a.60.2.3 (A:) Excinuclease UvrC C-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1szpa1 a.60.4.1 (A:81-144) DNA repair protein Rad51, N-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2a1ja1 a.60.2.5 (A:837-898) DNA repair endonuclease XPF {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2bgwa1 a.60.2.5 (A:160-229) DNA repair endonuclease XPF {Aeropyrum pernix [TaxId: 56636]} Back     information, alignment and structure
>d1x2ia1 a.60.2.5 (A:2-69) ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d2fmpa2 a.60.12.1 (A:92-148) DNA polymerase beta {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2a1jb1 a.60.2.5 (B:219-296) DNA excision repair protein ERCC-1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1b22a_ a.60.4.1 (A:) DNA repair protein Rad51, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2bcqa2 a.60.12.1 (A:329-385) DNA polymerase lambda {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jmsa3 a.60.12.1 (A:243-302) Terminal deoxynucleotidyl transferase {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1gm5a2 b.40.4.9 (A:106-285) RecG "wedge" domain {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d2p6ra2 a.289.1.2 (A:489-686) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1doqa_ a.60.3.1 (A:) C-terminal domain of RNA polymerase alpha subunit {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1z3eb1 a.60.3.1 (B:245-311) C-terminal domain of RNA polymerase alpha subunit {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d1lb2b_ a.60.3.1 (B:) C-terminal domain of RNA polymerase alpha subunit {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1ci4a_ a.60.5.1 (A:) Barrier-to-autointegration factor, BAF {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2q0zx1 a.289.1.1 (X:33-208) Protein pro2281 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure