Citrus Sinensis ID: 006218

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-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650------
MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKYFNGPDKFGSTSEQLPDNFIDAAPLSPSGSESYSTLNSTELQNELPGEQVWIEHSMADLGQLEMKANTWNGLDPSCSISKQTSGTESSSSLDQNKPQNRDDSRMRSVPIKSNQQEHKKSALKDKGASSILNFFKSGDLSCSSGNHDTEHAETLLPLGDCLSESNKKQVNIPKERLDNSTGDCLSESNQNQVNIPKERLAEAATTSTSTDRCGSDQIQQRSESWKLRIEEIDPSVIDELPKEIQDEIQAWLRPSKRPHRVKQGFTIADYFSPSKNR
ccHHHHHHHcccEEEEcccccccccccHHHHHHHHHHHHHHHHccccccccccHHHcccHHHHHHHHHccccccccHHHHHHHHcccccccccccccccHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHccEEEEcccHHHHHHHHHcccccccccEEEccccHHHHHccccccccccccHHHHHHHHHHHccccHHHHHHccHHHHHHHHcccHHHHHHHHHHccccccccccccccEEEcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccEEEEEEEccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccccccccccccEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHccHHHHHHHHHHHccccccccccccccccccccccccc
ccHHHHHHHcccEEEEEcccccccccHHHHHHHHHHHHHHHHHcccEEEEEccEEEEEcHHHHHHHHHHcccccHHHccHHHEccccccccccccccccHcHHHHcccccccccccccHHHHHHHHHHHHHHHHHHccEEEEcccHHHHHHHHHHccccccccEEEcHHHHHHHHHcccccccccccHHHHHHHHHHHccccHHHHHHccHHHHHHHHcccHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEEEEEEcccccccEEccccccccccccHHHHHHHHHHHHHHHHHHHcccccccccccccccccEEEEEEEcccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHcccccccHHHHHHHccccccccccccccccccccccccccccccHHHHHHccHHHHHHHHHHHccccccccccccccccccccccccc
mrgdeakevcpqielvqvpvargkadlssyrnaGSEVVSILARkgrcerasidEVYLDLTDAAEAMlaetppesldevDEEALKSHILGleskdgndskATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLAsgmnkpaqqttvpfssvkglldslpikkmkqlggklgtslqnelgvtTVGDLLKFSEdklqesygfntgtWLWNIargisgeevqarllpkshgsgksfpgpralKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLhasafkssdsdsrkkfpskscplrygtakiQEDTFNLFQAGLREFLGsfgvktqgshysgwRITALSVsaskivpvlsgTCSImkyfngpdkfgstseqlpdnfidaaplspsgsesystlnstelqnelpgeqvwIEHSMADLGQLEMkantwngldpscsiskqtsgtessssldqnkpqnrddsrmrsvpiksnqqeHKKSALKDKGASSILNFfksgdlscssgnhdtehaetllplgdclsesnkkqvnipkerldnstgdclsesnqnqvnipkerlaeaattststdrcgsdqiQQRSESWKLRIeeidpsvidelPKEIQDEIQAWlrpskrphrvkqgftiadyfspsknr
mrgdeakevcpqielvqvpvargkadlssyrnagsevvsilarkgrcerasIDEVYLDLTDAAEAMLAETPPESLDEVDEEALKSHIlgleskdgndskATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLhasafkssdsdsrkkfpskscplrygTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKYFNGPDKFGSTSEQLPDNFIDAAPLSPSGSESYSTLNSTELQNELPGEQVWIEHSMADLGQLEMKANTWNGLDPSCSISKqtsgtessssldqnkpqnrddsrmrsvpiksnqqehkksalkdkgaSSILNFFKSGDLSCSSGNHDTEHAETLLPLGDCLSESNKKqvnipkerldnstgdclsesnqnqvnipkerlaeaattststdrcgsdqiqQRSESWKLRIEEIdpsvidelpKEIQDEIQAwlrpskrphrvkqgftiadyfspsknr
MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHasafkssdsdsrkkfpsksCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKYFNGPDKFGSTSEQLPDNFIDAAPLSPSGSESYSTLNSTELQNELPGEQVWIEHSMADLGQLEMKANTWNGLDPSCsiskqtsgtessssLDQNKPQNRDDSRMRSVPIKSNQQEHKKSALKDKGASSILNFFKSGDLSCSSGNHDTEHAETLLPLGDCLSESNKKQVNIPKERLDNSTGDCLSESNQNQVNIPKERLAEAATTSTSTDRCGSDQIQQRSESWKLRIEEIDPSVIDELPKEIQDEIQAWLRPSKRPHRVKQGFTIADYFSPSKNR
*********CPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLTDAA*************************************TVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKL*****************VKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEV********************LKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTL*********************PLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKYFNGP********************************************VWIEHSMADLGQL******W********************************************************************************************************************************************************************VI*********EIQAWL***********GFTIAD********
*RGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEE************GKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSD*********CPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSA******************************************************************************************************************************************************************************************************************************************************PSVIDELPKE**********************************
********VCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLAS********TTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASA**************KSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKYFNGPDKFGSTSEQLPDNFIDAAPLS**************LQNELPGEQVWIEHSMADLGQLEMKANTWNGLDPSCS**************************MRSVPI*************DKGASSILNFFKSGDLSCSSGNHDTEHAETLLPLGDCLSESNKKQVNIPKERLDNSTGDCLSESNQNQVNIPKERL***********************SWKLRIEEIDPSVIDELPKEIQDEIQAWLRPSKRPHRVKQGFTIADYFSPSKNR
*RGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQA*****SHGS*KSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIV******CS*************************************************************************************************************************************************************************************************************************************IEEIDPSVIDELPKEIQDEIQAWLRP***********************
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MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKYFNGPDKFGSTSEQLPDNFIDAAPLSPSGSESYSTLNSTELQNELPGEQVWIEHSMADLGQLEMKANTWNGLDPSCSISKQTSGTESSSSLDQNKPQNRDDSRMRSVPIKSNQQEHKKSALKDKGASSILNFFKSGDLSCSSGNHDTEHAETLLPLGDCLSESNKKQVNIPKERLDNSTGDCLSESNQNQVNIPKERLAEAATTSTSTDRCGSDQIQQRSESWKLRIEEIDPSVIDELPKEIQDEIQAWLRPSKRPHRVKQGFTIADYFSPSKNR
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 ?
Query656 2.2.26 [Sep-21-2011]
Q9Y253713 DNA polymerase eta OS=Hom yes no 0.504 0.464 0.398 7e-61
Q9JJN0694 DNA polymerase eta OS=Mus yes no 0.557 0.527 0.370 8e-55
O42917 872 N-acetyltransferase eso1 yes no 0.426 0.321 0.275 2e-23
Q6R3M4717 DNA polymerase iota OS=Mu no no 0.431 0.394 0.283 2e-17
A3EWL31105 DNA repair protein REV1 O no no 0.440 0.261 0.263 3e-17
Q9UNA4740 DNA polymerase iota OS=Ho no no 0.432 0.383 0.280 3e-17
P58963331 DNA polymerase IV (Fragme yes no 0.321 0.637 0.272 1e-15
Q1RFU0351 DNA polymerase IV OS=Esch yes no 0.321 0.601 0.268 2e-15
Q0TL85351 DNA polymerase IV OS=Esch yes no 0.321 0.601 0.268 2e-15
A1A7U2351 DNA polymerase IV OS=Esch yes no 0.321 0.601 0.268 2e-15
>sp|Q9Y253|POLH_HUMAN DNA polymerase eta OS=Homo sapiens GN=POLH PE=1 SV=1 Back     alignment and function desciption
 Score =  235 bits (600), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 138/346 (39%), Positives = 194/346 (56%), Gaps = 15/346 (4%)

Query: 1   MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLT 60
           M  D+AK++CP + L QV  +RGKA+L+ YR A  EV+ I++R    ERASIDE Y+DLT
Sbjct: 63  MWADDAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRFAVIERASIDEAYVDLT 122

Query: 61  DAAEAMLA--ETPPESLDEVDEEALKSHILGLESKDGNDSKATVK-----EWLCRCDADH 113
            A +  L   +  P S D +    ++    G  + +    K  ++     +WL     D+
Sbjct: 123 SAVQERLQKLQGQPISADLLPSTYIEGLPQGPTTAEETVQKEGMRKQGLFQWLDSLQIDN 182

Query: 114 ---RDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSS 170
               D  L  G +IV E+R  + +ET F CSAGI+HNK+LAKLA G+NKP +QT V   S
Sbjct: 183 LTSPDLQLTVGAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHGS 242

Query: 171 VKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIA 230
           V  L   +PI+K++ LGGKLG S+   LG+  +G+L +F+E +LQ  +G   G+WL+ + 
Sbjct: 243 VPQLFSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWLYAMC 302

Query: 231 RGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRI 290
           RGI  + V+ R LPK+ G  K+FPG  AL T   VQ WL QL +EL ERL  D   N R+
Sbjct: 303 RGIEHDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRNDNDRV 362

Query: 291 AHTLTLHASAFKSSDSDSRKKFPSKSCPL-RYGTAKIQEDTFNLFQ 335
           A  L +          D R     + C L RY   K+  D F + +
Sbjct: 363 ATQLVVSIRV----QGDKRLSSLRRCCALTRYDAHKMSHDAFTVIK 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|Q6R3M4|POLI_MOUSE DNA polymerase iota OS=Mus musculus GN=Poli 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|Q9UNA4|POLI_HUMAN DNA polymerase iota OS=Homo sapiens GN=POLI PE=1 SV=3 Back     alignment and function description
>sp|P58963|DPO4_ESCFE DNA polymerase IV (Fragment) OS=Escherichia fergusonii GN=dinB PE=3 SV=1 Back     alignment and function description
>sp|Q1RFU0|DPO4_ECOUT DNA polymerase IV OS=Escherichia coli (strain UTI89 / UPEC) GN=dinB PE=3 SV=1 Back     alignment and function description
>sp|Q0TL85|DPO4_ECOL5 DNA polymerase IV OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=dinB PE=3 SV=1 Back     alignment and function description
>sp|A1A7U2|DPO4_ECOK1 DNA polymerase IV OS=Escherichia coli O1:K1 / APEC 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 ?
Query656
297738026 773 unnamed protein product [Vitis vinifera] 0.987 0.838 0.585 0.0
359472774 779 PREDICTED: DNA polymerase eta [Vitis vin 0.987 0.831 0.580 0.0
356528144703 PREDICTED: DNA polymerase eta-like [Glyc 0.945 0.881 0.581 0.0
297791325672 hypothetical protein ARALYDRAFT_494508 [ 0.910 0.888 0.557 0.0
30694599672 DNA polymerase eta subunit [Arabidopsis 0.908 0.886 0.556 0.0
23953869672 putative translesion synthesis polymeras 0.908 0.886 0.553 0.0
2660675689 similar to DNA-damage-inducible protein 0.908 0.865 0.542 0.0
358348538543 DNA polymerase eta [Medicago truncatula] 0.685 0.828 0.726 0.0
449526991557 PREDICTED: DNA polymerase eta-like [Cucu 0.708 0.834 0.678 0.0
145281849442 translesion synthesis DNA polymerase eta 0.567 0.841 0.793 1e-175
>gi|297738026|emb|CBI27227.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  765 bits (1975), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 418/714 (58%), Positives = 493/714 (69%), Gaps = 66/714 (9%)

Query: 1   MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLT 60
           MRGDEAK+VCPQI+LVQVPVARGKADL+ YRNAGSEVVSILARKGRCERASIDEVYLDLT
Sbjct: 68  MRGDEAKQVCPQIQLVQVPVARGKADLNVYRNAGSEVVSILARKGRCERASIDEVYLDLT 127

Query: 61  DAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLAC 120
           DAAEAMLAE PPESL+ +DEEALKSH+LGL ++ GND K +V+ WLCR  ADHRDKLLAC
Sbjct: 128 DAAEAMLAEMPPESLEAIDEEALKSHVLGL-NEGGNDIKESVRVWLCRSQADHRDKLLAC 186

Query: 121 GVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPI 180
           G LIV ELRMQV +ETEFTCSAGIAHNKMLAKLAS MNKPAQQT VP S V+GLL SLPI
Sbjct: 187 GALIVAELRMQVFRETEFTCSAGIAHNKMLAKLASAMNKPAQQTIVPLSCVRGLLGSLPI 246

Query: 181 KKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQA 240
           KKMKQLGGKLG+SLQ++LGV TVGDLL+FSE+KLQE YG NTGTWLWNIARGISGEEV++
Sbjct: 247 KKMKQLGGKLGSSLQSDLGVNTVGDLLQFSEEKLQECYGINTGTWLWNIARGISGEEVES 306

Query: 241 RLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASA 300
           RLL KSHGSGK+FPGP+ALKT+ASV++WLN+LCEEL ERL SDLEQNKRIAHTLTLHA A
Sbjct: 307 RLLSKSHGSGKTFPGPKALKTIASVENWLNELCEELDERLRSDLEQNKRIAHTLTLHARA 366

Query: 301 FKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRIT 360
           +KS+DSDS KKFPSKSCPLRYG AKIQED  NLFQAGLRE+LGS  VKT+ +  SGW IT
Sbjct: 367 YKSNDSDSHKKFPSKSCPLRYGIAKIQEDALNLFQAGLREYLGSCKVKTRANQCSGWSIT 426

Query: 361 ALSVSASKIVPVLSGTCSIMKYFNGPDKFGSTSEQLPDNFI-DAAPLSPSGSESYSTLNS 419
           ALSVSASKIV + +GTCSIMKYF+G D   S+ +Q  D    +AA LS SGSESY  LN 
Sbjct: 427 ALSVSASKIVAIPTGTCSIMKYFHGQDLSSSSLKQPQDRSTEEAASLSHSGSESYLGLNP 486

Query: 420 TELQNELPGEQVWIEHSMADLGQLEMKANTW--NGLDPSCSISKQTSGTESSSSLDQNKP 477
            E Q + PGE+  I + M +L Q E K   W   G        K+ + T S S  +Q +P
Sbjct: 487 RETQKQFPGEETRINYDMPNLDQQEKKRKMWEDQGTPSILRFFKRHNPTSSLSEQEQVEP 546

Query: 478 QNRDDSRMRS------------------VPIKSNQQEHKKSALKDKGASSILNFFKSGDL 519
               D+++ S                  +P +    E + +A +D  A+   + +K  D+
Sbjct: 547 IQ--DTKVSSSSGLWTTSESCSETGQIQLPKEMMVAETESNARRDSSAAKRNDGYKIDDI 604

Query: 520 SCSSGNHDTEHAETLLPLGDCLSESNKKQVNIPKE----------RLDNSTG-------- 561
            CS  +      +  +      S  +  QV +PKE          R D+S          
Sbjct: 605 DCSVMDELPPEIQEEV---QARSSEDLNQVQLPKEMMVAETESNARRDSSAAKRNDGYKI 661

Query: 562 ---DC----------------LSESNQNQVNIPKERLAEAATTSTSTDRCGSDQIQQRSE 602
              DC                 S    NQV +PKE +  AA T  +  RC      +R E
Sbjct: 662 DDIDCSVMDELSPEIQEEVQAWSSEELNQVQLPKETM--AAETGPNDRRCSLGGGAERRE 719

Query: 603 SWKLRIEEIDPSVIDELPKEIQDEIQAWLRPSKRPHRVKQGFTIADYFSPSKNR 656
           +W  +I+EIDPSV+DELP EI+ E+QAWLRP K     K+G +IA YFSP KN+
Sbjct: 720 TWSYKIDEIDPSVMDELPPEIRAEVQAWLRPQKPAKTGKRGSSIAHYFSPMKNK 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|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
>gi|145281849|gb|ABP49609.1| translesion synthesis DNA polymerase eta splice variant [Arabidopsis thaliana] 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 ?
Query656
TAIR|locus:2156309672 POLH "Y-family DNA polymerase 0.812 0.793 0.576 1.3e-165
ZFIN|ZDB-GENE-060421-4949749 polh "polymerase (DNA directed 0.574 0.503 0.381 6e-64
UNIPROTKB|E2RC81712 POLH "Uncharacterized protein" 0.579 0.533 0.376 1.1e-60
UNIPROTKB|F1NAG6686 POLH "Uncharacterized protein" 0.530 0.507 0.405 4.5e-59
UNIPROTKB|F1NCM3657 POLH "Uncharacterized protein" 0.530 0.529 0.405 4.5e-59
UNIPROTKB|F1RRJ6698 POLH "Uncharacterized protein" 0.553 0.520 0.364 2e-57
RGD|1309893689 Polh "polymerase (DNA directed 0.615 0.586 0.361 9.6e-57
MGI|MGI:1891457694 Polh "polymerase (DNA directed 0.615 0.582 0.357 5.3e-56
UNIPROTKB|F1MZ79710 POLH "Uncharacterized protein" 0.451 0.416 0.408 6.1e-56
UNIPROTKB|B4DG64651 POLH "DNA polymerase eta" [Hom 0.504 0.508 0.393 6.8e-56
TAIR|locus:2156309 POLH "Y-family DNA polymerase H" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1521 (540.5 bits), Expect = 1.3e-165, Sum P(2) = 1.3e-165
 Identities = 320/555 (57%), Positives = 385/555 (69%)

Query:     1 MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLT 60
             MRGDEAK  CPQI+LVQVPVARGKADL+ YR+AGSEVVSILA+ G+CERASIDEVYLDLT
Sbjct:    68 MRGDEAKAACPQIQLVQVPVARGKADLNLYRSAGSEVVSILAKSGKCERASIDEVYLDLT 127

Query:    61 DAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLAC 120
             DAAE+MLA+ PPESL+ +DEE LKSHILG+  +DG+D K +V+ W+CR DAD RDKLL+C
Sbjct:   128 DAAESMLADAPPESLELIDEEVLKSHILGMNREDGDDFKESVRNWICREDADRRDKLLSC 187

Query:   121 GVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPI 180
             G++IV ELR QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQT VP+++V+ LL SLPI
Sbjct:   188 GIIIVAELRKQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTVVPYAAVQELLSSLPI 247

Query:   181 KKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQA 240
             KKMKQLGGKLGTSLQ +LGV TVGDLL+FSE KLQE YG NTGTWLWNIARGISGEEVQ 
Sbjct:   248 KKMKQLGGKLGTSLQTDLGVDTVGDLLQFSETKLQEHYGVNTGTWLWNIARGISGEEVQG 307

Query:   241 RLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHXXX 300
             RLLPKSHGSGK+FPGPRALK++++VQHWLNQL EELSERL SDLEQNKRIA TLTLH   
Sbjct:   308 RLLPKSHGSGKTFPGPRALKSLSTVQHWLNQLSEELSERLGSDLEQNKRIASTLTLHASA 367

Query:   301 XXXXXXXXXXXXXXXXCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRIT 360
                             CP+RYG  KIQED FNLFQA LRE++GSFG+K QG+    WRIT
Sbjct:   368 FRSKDSDSHKKFPSKSCPMRYGVTKIQEDAFNLFQAALREYMGSFGIKPQGNKLETWRIT 427

Query:   361 ALSVSASKIVPVLSGTCSIMKYFNGPDKFGSTSEQLPDNFIDA-APLSPSGSESYSTLNS 419
              LSVSASKIV + SGT SIM+YF       S S    D  +     ++ S SE  S   S
Sbjct:   428 GLSVSASKIVDIPSGTSSIMRYFQSQPTVPSRSA---DGCVQGNVAMTASASEGCSEQRS 484

Query:   420 TELQNELPGEQVWIEHSMADLGQLEMKANTWNGLDP-SCXXXXXXXXXXXXXXLDQNKPQ 478
             TE Q  +P     + +++ +    +   +  +  D  SC               + NK  
Sbjct:   485 TETQAAMPEVDTGVTYTLPNFENQDKDIDLVSEKDVVSCPSNEATDVSTQS---ESNK-- 539

Query:   479 NRDDSRMRSVPIKSNQQEHKKSALKDKGASSILNFFKSGDLSCSSGNHDTEHAETLLPLG 538
                 ++ + +  K N  + K     ++G  SI++ FK+ + +  S   +T+   T+    
Sbjct:   540 ---GTQTKKIGRKMNNSKEK-----NRGMPSIVDIFKNYNATPPS-KQETQEDSTVSSAS 590

Query:   539 D---CLSESNKKQVN 550
                   S S+  QVN
Sbjct:   591 KRAKLSSSSHNSQVN 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|F1NAG6 POLH "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|F1NCM3 POLH "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|F1RRJ6 POLH "Uncharacterized protein" [Sus scrofa (taxid:9823)] 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|F1MZ79 POLH "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|B4DG64 POLH "DNA polymerase eta" [Homo sapiens (taxid:9606)] 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 ?
Query656
cd01702359 cd01702, PolY_Pol_eta, DNA Polymerase eta 3e-83
cd03586334 cd03586, PolY_Pol_IV_kappa, DNA Polymerase IV/Kapp 2e-45
COG0389354 COG0389, DinP, Nucleotidyltransferase/DNA polymera 1e-32
cd00424343 cd00424, PolY, Y-family of DNA polymerases 2e-32
PRK02406343 PRK02406, PRK02406, DNA polymerase IV; Validated 8e-28
cd01703379 cd01703, PolY_Pol_iota, DNA Polymerase iota 4e-20
cd01701404 cd01701, PolY_Rev1, DNA polymerase Rev1 6e-20
PRK03348454 PRK03348, PRK03348, DNA polymerase IV; Provisional 1e-17
PRK14133347 PRK14133, PRK14133, DNA polymerase IV; Provisional 1e-17
PRK03103409 PRK03103, PRK03103, DNA polymerase IV; Reviewed 1e-17
PRK01810407 PRK01810, PRK01810, DNA polymerase IV; Validated 2e-17
pfam00817148 pfam00817, IMS, impB/mucB/samB family 7e-17
pfam11799136 pfam11799, IMS_C, impB/mucB/samB family C-terminal 5e-16
PRK03352346 PRK03352, PRK03352, DNA polymerase IV; Validated 3e-15
cd01700344 cd01700, PolY_Pol_V_umuC, umuC subunit of DNA Poly 1e-13
PRK01216351 PRK01216, PRK01216, DNA polymerase IV; Validated 2e-12
PRK02794419 PRK02794, PRK02794, DNA polymerase IV; Provisional 1e-11
PRK03858396 PRK03858, PRK03858, DNA polymerase IV; Validated 7e-10
cd03468335 cd03468, PolY_like, DNA Polymerase Y-family 2e-06
PTZ00205571 PTZ00205, PTZ00205, DNA polymerase kappa; Provisio 1e-05
PRK03609422 PRK03609, umuC, DNA polymerase V subunit UmuC; Rev 4e-04
>gnl|CDD|176456 cd01702, PolY_Pol_eta, DNA Polymerase eta Back     alignment and domain information 
 Score =  266 bits (681), Expect = 3e-83
 Identities = 138/372 (37%), Positives = 171/372 (45%), Gaps = 65/372 (17%)

Query: 1   MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLT 60
           M  DEAK+ CP + L  V           Y+    E                        
Sbjct: 49  MTIDEAKKKCPDLILAHVAT---------YKKGEDE-----------------------A 76

Query: 61  DAAEAMLAETPPESLDEVDEEALKSHILGLESKDGND-SKATVKEWLCRCDADHRDKLLA 119
           D  E         SLD     + K  IL +  + G+   KA++ E             L 
Sbjct: 77  DYHENPSPARHKVSLDPYRRASRK--ILNILKRFGDVVEKASIDE-----------AYLD 123

Query: 120 CGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLP 179
            G  IV E+R QV  E  +TCSAGIAHNKMLAKLASGMNKP  QT +   +V   L SLP
Sbjct: 124 LGSRIVEEIRQQVYDELGYTCSAGIAHNKMLAKLASGMNKPNAQTILRNDAVASFLSSLP 183

Query: 180 IKKMKQLGGKLGTSLQNELGVTTVGDLLKF--SEDKLQESYGFNTGTWLWNIARGISGEE 237
           I  ++ LGGKLG  + + LG+ T GD+  F  SE  LQE +G   G WL+N+ RGI  E 
Sbjct: 184 ITSIRGLGGKLGEEIIDLLGLPTEGDVAGFRSSESDLQEHFGEKLGEWLYNLLRGIDHEP 243

Query: 238 VQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLH 297
           V+ R LPKS GS K+FPG  AL T   VQHWL  L  EL+ RL  D  +N R   TL L 
Sbjct: 244 VKPRPLPKSMGSSKNFPGKTALSTE-DVQHWLLVLASELNSRLEDDRYENNRRPKTLVLS 302

Query: 298 ASAFKSSDSDSRKKFPSKSCPLRYGTA-KIQEDTFNLFQAGLREFLGSFGVKTQGSHYSG 356
                           S+SC L    A KI +D F L +A   E LG             
Sbjct: 303 LRQRGDG------VRRSRSCALPRYDAQKIVKDAFKLIKAINEEGLGLAWN--------- 347

Query: 357 WRITALSVSASK 368
           + +T LS+S +K
Sbjct: 348 YPLTLLSLSFTK 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|223466 COG0389, DinP, Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|176453 cd00424, PolY, Y-family of DNA polymerases Back     alignment and domain information
>gnl|CDD|235035 PRK02406, PRK02406, DNA polymerase IV; Validated Back     alignment and domain information
>gnl|CDD|176457 cd01703, PolY_Pol_iota, DNA Polymerase iota Back     alignment and domain information
>gnl|CDD|176455 cd01701, PolY_Rev1, DNA polymerase Rev1 Back     alignment and domain information
>gnl|CDD|235118 PRK03348, PRK03348, DNA polymerase IV; Provisional Back     alignment and domain information
>gnl|CDD|184529 PRK14133, PRK14133, DNA polymerase IV; Provisional Back     alignment and domain information
>gnl|CDD|235104 PRK03103, PRK03103, DNA polymerase IV; Reviewed Back     alignment and domain information
>gnl|CDD|179337 PRK01810, PRK01810, DNA polymerase IV; Validated Back     alignment and domain information
>gnl|CDD|216135 pfam00817, IMS, impB/mucB/samB family Back     alignment and domain information
>gnl|CDD|221229 pfam11799, IMS_C, impB/mucB/samB family C-terminal Back     alignment and domain information
>gnl|CDD|179564 PRK03352, PRK03352, DNA polymerase IV; Validated 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|179251 PRK01216, PRK01216, 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|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|140232 PTZ00205, PTZ00205, DNA polymerase kappa; Provisional Back     alignment and domain information
>gnl|CDD|179607 PRK03609, umuC, DNA polymerase V subunit UmuC; Reviewed Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 656
KOG2095656 consensus DNA polymerase iota/DNA damage inducible 100.0
PTZ00205571 DNA polymerase kappa; Provisional 100.0
cd01703379 PolY_Pol_iota DNA Polymerase iota. Pol iota, also 100.0
cd01701404 PolY_Rev1 DNA polymerase Rev1. Rev1 is a translesi 100.0
cd01702359 PolY_Pol_eta DNA Polymerase eta. Pol eta, also cal 100.0
cd00424343 PolY Y-family of DNA polymerases. Y-family DNA pol 100.0
PRK01216351 DNA polymerase IV; Validated 100.0
PRK03858396 DNA polymerase IV; Validated 100.0
PRK03348454 DNA polymerase IV; Provisional 100.0
PRK14133347 DNA polymerase IV; Provisional 100.0
PRK02794419 DNA polymerase IV; Provisional 100.0
PRK03103409 DNA polymerase IV; Reviewed 100.0
PRK01810407 DNA polymerase IV; Validated 100.0
PRK02406343 DNA polymerase IV; Validated 100.0
PRK03609422 umuC DNA polymerase V subunit UmuC; Reviewed 100.0
PRK03352346 DNA polymerase IV; Validated 100.0
cd03586334 PolY_Pol_IV_kappa DNA Polymerase IV/Kappa. Pol IV, 100.0
cd01700344 PolY_Pol_V_umuC umuC subunit of DNA Polymerase V. 100.0
KOG2094490 consensus Predicted DNA damage inducible protein [ 100.0
COG0389354 DinP Nucleotidyltransferase/DNA polymerase involve 100.0
KOG20931016 consensus Translesion DNA polymerase - REV1 deoxyc 100.0
cd03468335 PolY_like DNA Polymerase Y-family. Y-family DNA po 100.0
PF00817149 IMS: impB/mucB/samB family; InterPro: IPR001126 In 99.77
PF11799127 IMS_C: impB/mucB/samB family C-terminal domain; In 99.34
PF1179832 IMS_HHH: IMS family HHH motif; InterPro: IPR024728 98.5
PRK04301317 radA DNA repair and recombination protein RadA; Va 97.91
TIGR02236310 recomb_radA DNA repair and recombination protein R 97.3
PF1452060 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU 96.78
PF1173193 Cdd1: Pathogenicity locus; InterPro: IPR021725 Cdd 96.42
PRK12766232 50S ribosomal protein L32e; Provisional 94.55
PF1039152 DNA_pol_lambd_f: Fingers domain of DNA polymerase 93.35
PF0499481 TfoX_C: TfoX C-terminal domain; InterPro: IPR00707 92.7
COG3743133 Uncharacterized conserved protein [Function unknow 91.76
PRK02362737 ski2-like helicase; Provisional 91.51
PF0311866 RNA_pol_A_CTD: Bacterial RNA polymerase, alpha cha 91.39
PF14229122 DUF4332: Domain of unknown function (DUF4332) 90.05
PF1282664 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS 89.53
PRK01172674 ski2-like helicase; Provisional 86.2
PRK00254720 ski2-like helicase; Provisional 85.55
PRK0775895 hypothetical protein; Provisional 81.88
COG2251474 Predicted nuclease (RecB family) [General function 81.69
PF14229122 DUF4332: Domain of unknown function (DUF4332) 81.68
>KOG2095 consensus DNA polymerase iota/DNA damage inducible protein [Replication, recombination and repair] Back     alignment and domain information 
Probab=100.00  E-value=2.7e-56  Score=492.27  Aligned_cols=297  Identities=49%  Similarity=0.718  Sum_probs=268.8

Q ss_pred             CcHHHHHHhCCCcEEEeccCcCCCCChHHHHHHHHHHHHHHhhc-CCeEEecCceEEEEccchhHHHhccCCCCCcchhh
Q 006218            1 MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESLDEVD   79 (656)
Q Consensus         1 Mp~~~AkklCP~LivV~vP~~~~k~d~~~Yr~~S~~V~~IL~~~-~~VE~~SIDEafLDlT~~~~~~L~~~~~~~l~~~~   79 (656)
                      |++++||++||+|++||||+.++++|..+||++|.+|+.+|..| +.||++|+||+|||+|.++++++.+.......-..
T Consensus        67 M~v~EAK~kCPqLvlv~v~~~~~ka~~~~YR~as~ev~~~L~~y~~viek~~~dea~ld~tasvder~q~L~s~~~~~~~  146 (656)
T KOG2095|consen   67 MTVDEAKKKCPQLVLVHVPVAREKADLPKYREASEEVKESLEPYRPVIEKASKDEAFLDLTASVDERLQDLQSDEFNMLL  146 (656)
T ss_pred             hhHHHHHhhCCceEEeecccccccchhhhhhhhHHHHHHHHhhhHHHHHHHhhhhhhhhHHHHHHHHHHHHhhhhhhhhh
Confidence            89999999999999999999999999999999999999999999 69999999999999999998876543311100001


Q ss_pred             HHhhhhhcccCc-----------cCCCCCchhhhhhhhhccCccchhhhhhhHHHHHHHHHHHHHHHhCCceeEeccCcH
Q 006218           80 EEALKSHILGLE-----------SKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNK  148 (656)
Q Consensus        80 ~e~~~s~l~g~~-----------~~~g~~~~~~v~~w~~~~~~~~~d~ll~~~~~iA~~IR~~I~~~tGlt~SiGIA~NK  148 (656)
                      ++-..+|.++..           .++|...++.+..|++.++.+|+|.+|.+|+.||++||++|+.+||||||+|||+||
T Consensus       147 ~~~p~~~~~~~~s~~~~~~~~~~~e~~~~~ee~~~~~~~~~d~~~~d~~L~iGa~Iv~EiR~~i~~elg~tCSAGIa~NK  226 (656)
T KOG2095|consen  147 EEPPYGLIYGLPSALPNTREATNSENPLMREEIVSLWIENDDFDWDDVRLLIGAQIVKEIRDAIKLELGYTCSAGIAHNK  226 (656)
T ss_pred             hccchhcccCCccccchhhhhhhhccccchhhHhhhhhhccccCchhhhhHHHHHHHHHHHHHHHHHhCceeeccccccH
Confidence            111223444333           255556677889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCCCCCeeecCcccHHhhcccCCCccccCCchHHHHHHHHhcCCcchhhhhcCCHHHHHHhhcccchhhHHH
Q 006218          149 MLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWN  228 (656)
Q Consensus       149 lLAKLAS~~~KP~G~~vl~~~~v~~fL~~LPI~kL~GIG~kt~~kL~~~lGI~TigDLa~l~~~~L~~~FG~~~G~~L~~  228 (656)
                      +|||||++++|||.||+|+...+.+||..|||+++|++|+++++.|.+.+||.++|||+++++..|++.||.+.|.|||+
T Consensus       227 mLAKLvsg~nKPnqQTil~~~~v~~ll~slpi~k~~~lGGk~G~~lie~LGi~~vgdl~~fse~~L~~~fg~~~g~~l~~  306 (656)
T KOG2095|consen  227 MLAKLVSGRNKPNQQTILPNTYVQDLLDSLPITKIRTLGGKLGEELIEVLGIDSVGDLQQFSETQLQKKFGEKNGTWLRN  306 (656)
T ss_pred             HHHHHHhccCCCCcceecchHHHHHHHHhCCCceeeeccchHHHHHHHHhCCchHHHHHhcCHHHHHHhhCcchhHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999889999999


Q ss_pred             HHhcCCCcccccccCCCcccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeEEEEE
Q 006218          229 IARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLH  297 (656)
Q Consensus       229 ~arGiD~~~V~~~~~~KSIs~~~tF~~~~~i~~~eel~~~L~~L~~eL~~RLr~~~~~~~~~a~tvtL~  297 (656)
                      .|+|+|.++|.++..+|||+++++|++...+.+.+++..||..+++++..||..+...+.+.+.+++++
T Consensus       307 la~Gid~s~V~pr~~pkSig~~K~Fpg~~~~~~~~~l~~wl~~la~el~~Rl~~d~~en~r~as~l~~~  375 (656)
T KOG2095|consen  307 LARGIDNSPVRPRGLPKSIGSEKNFPGKRSRKSLEELQRWLNQLAEELAERLGKDRNENKRRASTLVVS  375 (656)
T ss_pred             HhcccCCCccccCCCCcchhhhhcCCCccccccHHHHHHHHHHHHHHHHHHHHhhhhhhccccceEEee
Confidence            999999999999999999999999998788999999999999999999999999988899999999999

>PTZ00205 DNA polymerase kappa; Provisional Back     alignment and domain information
>cd01703 PolY_Pol_iota DNA Polymerase iota Back     alignment and domain information
>cd01701 PolY_Rev1 DNA polymerase Rev1 Back     alignment and domain information
>cd01702 PolY_Pol_eta DNA Polymerase eta Back     alignment and domain information
>cd00424 PolY Y-family of DNA polymerases 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
>PRK03348 DNA polymerase IV; Provisional Back     alignment and domain information
>PRK14133 DNA polymerase IV; Provisional Back     alignment and domain information
>PRK02794 DNA polymerase IV; Provisional Back     alignment and domain information
>PRK03103 DNA polymerase IV; Reviewed Back     alignment and domain information
>PRK01810 DNA polymerase IV; Validated Back     alignment and domain information
>PRK02406 DNA polymerase IV; Validated Back     alignment and domain information
>PRK03609 umuC DNA polymerase V subunit UmuC; Reviewed Back     alignment and domain information
>PRK03352 DNA polymerase IV; Validated Back     alignment and domain information
>cd03586 PolY_Pol_IV_kappa DNA Polymerase IV/Kappa Back     alignment and domain information
>cd01700 PolY_Pol_V_umuC umuC subunit of DNA Polymerase V Back     alignment and domain information
>KOG2094 consensus Predicted DNA damage inducible protein [Replication, recombination and repair] Back     alignment and domain information
>COG0389 DinP Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA 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
>PF00817 IMS: impB/mucB/samB family; InterPro: IPR001126 In Escherichia coli, UV and many chemicals appear to cause mutagenesis by a process of translesion synthesis that requires DNA polymerase III and the SOS-regulated proteins UmuD, UmuC and RecA 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
>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
>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
>COG3743 Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>PRK02362 ski2-like helicase; Provisional 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
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B Back     alignment and domain information
>PRK01172 ski2-like helicase; Provisional Back     alignment and domain information
>PRK00254 ski2-like helicase; Provisional Back     alignment and domain information
>PRK07758 hypothetical protein; 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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query656
3mr6_A435 Human Dna Polymerase Eta - Dna Ternary Complex With 2e-59
3mr2_A435 Human Dna Polymerase Eta In Complex With Normal Dna 2e-59
2dpi_A420 Ternary Complex Of Hpoli With Dna And Dctp Length = 4e-16
3h40_A389 Binary Complex Of Human Dna Polymerase Iota With Te 4e-16
2alz_A390 Ternary Complex Of Hpoli With Dna And Dctp Length = 4e-16
1t3n_A388 Structure Of The Catalytic Core Of Dna Polymerase I 5e-16
3gv5_B420 Human Dna Polymerase Iota In Complex With T Templat 1e-15
1t94_A459 Crystal Structure Of The Catalytic Core Of Human Dn 1e-11
3pzp_A517 Human Dna Polymerase Kappa Extending Opposite A Cis 1e-11
2oh2_A508 Ternary Complex Of Human Dna Polymerase Length = 50 1e-11
1jih_A513 Yeast Dna Polymerase Eta Length = 513 3e-10
3mfh_A520 Dna Polymerase Eta In Complex With Undamaged Dna Le 4e-10
2wtf_A536 Dna Polymerase Eta In Complex With The Cis-Diammine 4e-10
2r8j_A554 Structure Of The Eukaryotic Dna Polymerase Eta In C 4e-10
4dez_A356 Structure Of Msdpo4 Length = 356 6e-10
3gqc_A504 Structure Of Human Rev1-Dna-Dntp Ternary Complex Le 3e-08
4f4z_B361 Y-family Dna Polymerase Chimera Dpo4-dpo4-dbh Lengt 3e-08
3v6h_A348 Replication Of N2,3-Ethenoguanine By Dna Polymerase 3e-08
2imw_P348 Mechanism Of Template-Independent Nucleotide Incorp 3e-08
2uvr_A358 Crystal Structures Of Mutant Dpo4 Dna Polymerases W 3e-08
3v6k_A347 Replication Of N2,3-Ethenoguanine By Dna Polymerase 4e-08
2bq3_A358 Dna Adduct Bypass Polymerization By Sulfolobus Solf 4e-08
1jxl_A352 Crystal Structure Of A Y-Family Dna Polymerase In A 4e-08
4gc7_A359 Crystal Structure Of Dpo4 In Complex With S-mc-dadp 4e-08
2w9b_A358 Binary Complex Of Dpo4 Bound To N2,N2-Dimethyl- Deo 4e-08
2ago_A341 Fidelity Of Dpo4: Effect Of Metal Ions, Nucleotide 4e-08
3pvx_A347 Binary Complex Of Aflatoxin B1 Adduct Modified Dna 4e-08
3pr4_A341 Dpo4 Y12a Mutant Incorporating Dadp Opposite Templa 4e-08
3gii_A341 Dpo4 Extension Ternary Complex With Disordered A Op 4e-08
2rdi_A342 Snapshots Of A Y-family Dna Polymerase In Replicati 4e-08
2uvv_A358 Crystal Structures Of Mutant Dpo4 Dna Polymerases W 4e-08
2asd_A360 Oxog-Modified Insertion Ternary Complex Length = 36 4e-08
3qz7_A360 T-3 Ternary Complex Of Dpo4 Length = 360 5e-08
4f4w_A361 Y-family Dna Polymerase Chimera Dbh-dpo4-dpo4 #1 Le 2e-07
4f4y_A362 Y-family Dna Polymerase Chimera Dbh-dpo4-dbh Length 2e-07
1jx4_A352 Crystal Structure Of A Y-Family Dna Polymerase In A 4e-07
3bq0_A354 Pre-insertion Binary Complex Of Dbh Dna Polymerase 6e-07
1k1q_A354 Crystal Structure Of A Dinb Family Error Prone Dna 7e-07
4f50_A361 Y-family Dna Polymerase Chimera Dbh-dbh-dpo4 Length 8e-07
1im4_A221 Crystal Structure Of A Dinb Homolog (Dbh) Lesion By 4e-05
>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 =  227 bits (578), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 136/346 (39%), Positives = 191/346 (55%), Gaps = 15/346 (4%)
Query: 1   MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLT 60
           M  D+AK++CP + L QV  +RGKA+L+ YR A  EV+ I++R    ERASIDE Y+DLT
Sbjct: 66  MWADDAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRFAVIERASIDEAYVDLT 125
Query: 61  DAAEAMLA--ETPPESLDEVDEEALKSHILGLESKDGNDSKATVK-----EWLCRCDADH 113
            A +  L   +  P S D +    ++    G  + +    K  ++     +WL     D+
Sbjct: 126 SAVQERLQKLQGQPISADLLPSTYIEGLPQGPTTAEETVQKEGMRKQGLFQWLDSLQIDN 185
Query: 114 R---DKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSS 170
               D  L  G +IV E+R  + +ET F CSAGI+HNK+LAKLA G+NKP +QT V   S
Sbjct: 186 LTSPDLQLTVGAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHGS 245
Query: 171 VKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIA 230
           V  L   +PI+K++ LGGKLG S+   LG+  +G+L +F+E +LQ  +G   G+WL+ + 
Sbjct: 246 VPQLFSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWLYAMC 305
Query: 231 RGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRI 290
           RGI  + V+ R LPK+ G  K+FPG  AL T   VQ WL QL +EL ERL  D   N R+
Sbjct: 306 RGIEHDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRNDNDRV 365
Query: 291 AHTLTLHXXXXXXXXXXXXXXXXXXXCPL-RYGTAKIQEDTFNLFQ 335
           A  L +                    C L RY   K+  D F + +
Sbjct: 366 ATQLVV----SIRVQGDKRLSSLRRCCALTRYDAHKMSHDAFTVIK 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|2DPI|A Chain A, Ternary Complex Of Hpoli With Dna And Dctp Length = 420 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|2ALZ|A Chain A, Ternary Complex Of Hpoli With Dna And Dctp Length = 390 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|3GV5|B Chain B, Human Dna Polymerase Iota In Complex With T Template Dna And Incoming Ddadp Length = 420 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|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|4DEZ|A Chain A, Structure Of Msdpo4 Length = 356 Back     alignment and structure
>pdb|3GQC|A Chain A, Structure Of Human Rev1-Dna-Dntp Ternary Complex Length = 504 Back     alignment and structure
>pdb|4F4Z|B Chain B, Y-family Dna Polymerase Chimera Dpo4-dpo4-dbh Length = 361 Back     alignment and structure
>pdb|3V6H|A Chain A, Replication Of N2,3-Ethenoguanine By Dna Polymerases Length = 348 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|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|3V6K|A Chain A, Replication Of N2,3-Ethenoguanine By Dna Polymerases Length = 347 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|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|3PR4|A Chain A, Dpo4 Y12a Mutant Incorporating Dadp Opposite Template Dt Length = 341 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|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|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|2ASD|A Chain A, Oxog-Modified Insertion Ternary Complex Length = 360 Back     alignment and structure
>pdb|3QZ7|A Chain A, T-3 Ternary Complex Of Dpo4 Length = 360 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|4F4Y|A Chain A, Y-family Dna Polymerase Chimera Dbh-dpo4-dbh Length = 362 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|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 ?
Query656
3osn_A420 DNA polymerase IOTA; hoogsteen base PAIR, protein- 2e-98
4ecq_A435 DNA polymerase ETA; transferase-DNA complex; HET: 4e-95
3mfi_A520 DNA polymerase ETA; DNA damage, DNA repair, DNA re 2e-68
1t94_A459 Polymerase (DNA directed) kappa; replication, DNA 1e-51
3pzp_A517 DNA polymerase kappa; DNA nucleotidyltransferase, 1e-46
1jx4_A352 DNA polymerase IV (family Y); protein-DNA complex, 4e-42
3gqc_A504 DNA repair protein REV1; protein-DNA complex, DNA 1e-40
3bq0_A354 POL IV, DBH, DNA polymerase IV; Y-family, lesion b 2e-40
2aq4_A434 DNA repair protein REV1; polymerase, PAD, N-digit, 3e-37
1im4_A221 DBH; DNA polymerase PALM, thumb, fingers, helix-ha 9e-30
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-05
>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 =  307 bits (787), Expect = 2e-98
 Identities = 91/378 (24%), Positives = 149/378 (39%), Gaps = 40/378 (10%)

Query: 1   MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILAR-KGRCERASIDEVYLDL 59
           M   +AKE CPQ+ LV         DL+ YR    +V  +L       ER   DE ++DL
Sbjct: 79  MNVRDAKEKCPQLVLVNGE------DLTRYREMSYKVTELLEEFSPVVERLGFDENFVDL 132

Query: 60  TDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLA 119
           T+  E  L +   + L                          V         D     L 
Sbjct: 133 TEMVEKRLQQLQSDELS------------------AVTVSGHVYNNQSINLLDVLHIRLL 174

Query: 120 CGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLP 179
            G  I  E+R  +  +   T  AG+A NK+LAKL SG+ KP QQT +   S + L+ SL 
Sbjct: 175 VGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLN 234

Query: 180 -IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEV 238
            IK++  +G K    L+  LG+ +V DL  FS   L++  G +    +  ++ G     V
Sbjct: 235 HIKEIPGIGYKTAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPV 293

Query: 239 QARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHA 298
                P+S     SF       +    ++ + +L   L  R    + Q+ R  HT+ L  
Sbjct: 294 ILSGPPQSFSEEDSFKK---CSSEVEAKNKIEELLASLLNR----VCQDGRKPHTVRLI- 345

Query: 299 SAFKSSDSDSRKKFPSKSCPL-RYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGW 357
              +   S+      S+ CP+  +   K+    +++    +   +  F  +   +    +
Sbjct: 346 --IRRYSSEKHYGRESRQCPIPSHVIQKLGTGNYDVMTPMVDILMKLF--RNMVNVKMPF 401

Query: 358 RITALSVSASKIVPVLSG 375
            +T LSV    +  + + 
Sbjct: 402 HLTLLSVCFCNLKALNTA 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
>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
>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
>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
>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 ?
Query656
4ecq_A435 DNA polymerase ETA; transferase-DNA complex; HET: 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
3bq0_A354 POL IV, DBH, DNA polymerase IV; Y-family, lesion b 100.0
3mfi_A520 DNA polymerase ETA; DNA damage, DNA repair, DNA re 100.0
4f4y_A362 POL IV, DNA polymerase IV; Y-family polymerase, tr 100.0
4dez_A356 POL IV 1, DNA polymerase IV 1; Y-family, transfera 100.0
3pzp_A517 DNA polymerase kappa; DNA nucleotidyltransferase, 100.0
1t94_A459 Polymerase (DNA directed) kappa; replication, DNA 100.0
2aq4_A434 DNA repair protein REV1; polymerase, PAD, N-digit, 100.0
1im4_A221 DBH; DNA polymerase PALM, thumb, fingers, helix-ha 100.0
1unn_C115 POL IV, DNA polymerase IV; beta-clamp, translesion 99.04
2a1j_A63 DNA repair endonuclease XPF; XPF, xeroderma pigmen 96.07
1wcn_A70 Transcription elongation protein NUSA; RNA-binding 95.93
2kwv_A48 RAD30 homolog B, DNA polymerase IOTA; ubiquitin-bi 95.55
1z00_B84 DNA repair endonuclease XPF; helix-hairpin-helix, 94.66
3bqs_A93 Uncharacterized protein; 10114F, NYSGXRC, PSI-2, s 94.21
3mab_A93 Uncharacterized protein; NYSGXRC, PSI-2, structura 93.8
1b22_A114 DNA repair protein RAD51; DNA binding, riken struc 92.82
1z3e_B73 DNA-directed RNA polymerase alpha chain; bacterial 91.39
1kft_A78 UVRC, excinuclease ABC subunit C; helix-hairpin-he 91.14
2a1j_B91 DNA excision repair protein ERCC-1; XPF, xeroderma 91.05
1z00_A89 DNA excision repair protein ERCC-1; helix-hairpin- 90.45
3gfk_B79 DNA-directed RNA polymerase subunit alpha; protein 90.13
1vq8_Y241 50S ribosomal protein L32E; ribosome 50S, protein- 89.09
2khu_A108 Immunoglobulin G-binding protein G, DNA polymerase 89.09
3k4g_A86 DNA-directed RNA polymerase subunit alpha; bacteri 88.51
2nrt_A220 Uvrabc system protein C; UVRC, endonuclease, RNAse 87.11
1ci4_A89 Protein (barrier-TO-autointegration factor (BAF) ) 85.07
2va8_A715 SSO2462, SKI2-type helicase; hydrolase, DNA repair 83.98
2kz3_A83 Putative uncharacterized protein RAD51L3; RAD51D, 83.43
1coo_A98 RNA polymerase alpha subunit; transcription regula 83.23
1pzn_A349 RAD51, DNA repair and recombination protein RAD51, 83.13
3im1_A328 Protein SNU246, PRE-mRNA-splicing helicase BRR2; A 81.21
>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
Probab=100.00  E-value=5.2e-57  Score=496.56  Aligned_cols=355  Identities=38%  Similarity=0.607  Sum_probs=282.3

Q ss_pred             CcHHHHHHhCCCcEEEeccCcCCCCChHHHHHHHHHHHHHHhhcCCeEEecCceEEEEccchhHHHhccCCCCCcchhhH
Q 006218            1 MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLTDAAEAMLAETPPESLDEVDE   80 (656)
Q Consensus         1 Mp~~~AkklCP~LivV~vP~~~~k~d~~~Yr~~S~~V~~IL~~~~~VE~~SIDEafLDlT~~~~~~L~~~~~~~l~~~~~   80 (656)
                      ||+++|+++||+++++++|..+|++||++|+++|++||+||.+|..||++||||+|||||+....++.+.......   .
T Consensus        66 m~~~~A~~lcP~l~~~~~~~~~~~~~~~~Y~~~S~~i~~il~~~~~vE~~SiDEafLDlT~~~~~~l~~l~g~~~~---~  142 (435)
T 4ecq_A           66 MWADDAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRFAVIERASIDEAYVDLTSAVQERLQKLQGQPIS---A  142 (435)
T ss_dssp             CBHHHHHHHCTTCEEEECCEETTEECCHHHHHHHHHHHHHHHHHSCEEEEETTEEEEECHHHHHHHHHHHTTCCCC---G
T ss_pred             CcHHHHHHhCCCeEEeccccccCCCCHHHHHHHHHHHHHHHHhcCceeecccceEEEECccchhhcchhccccccc---c
Confidence            9999999999999999766556778999999999999999999989999999999999999875432211100000   0


Q ss_pred             Hhh-hhhcccCcc----CCCCCch-----hhhhhhhhc---cCccchhhhhhhHHHHHHHHHHHHHHHhCCceeEeccCc
Q 006218           81 EAL-KSHILGLES----KDGNDSK-----ATVKEWLCR---CDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHN  147 (656)
Q Consensus        81 e~~-~s~l~g~~~----~~g~~~~-----~~v~~w~~~---~~~~~~d~ll~~~~~iA~~IR~~I~~~tGlt~SiGIA~N  147 (656)
                      +.+ .+++.|...    ..|....     .++..|++.   .+.+|.|..|..|+.+|++||++|++++|||||||||+|
T Consensus       143 ~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ia~~Ir~~I~~~~Gl~~svGIa~n  222 (435)
T 4ecq_A          143 DLLPSTYIEGLPQGPTTAEETVQKEGMRKQGLFQWLDSLQIDNLTSPDLQLTVGAVIVEEMRAAIERETGFQCSAGISHN  222 (435)
T ss_dssp             GGCTTEEETTCSCCCC-----CSHHHHHHHHHHHHHHHCCTTCTTCHHHHHHHHHHHHHHHHHHHHHHHSCCEEEEEESS
T ss_pred             ccccccccccCCCcccccccccchhhhhcccccccccccccccccchhhhhhHHHHHHHHHHHHHHHHhCCcEEEEecCC
Confidence            000 000001000    0000001     124456532   345678888889999999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCCeeecCcccHHhhcccCCCccccCCchHHHHH-HHHhcCCcchhhhhcCCHHHHHHhhcccchhhH
Q 006218          148 KMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTS-LQNELGVTTVGDLLKFSEDKLQESYGFNTGTWL  226 (656)
Q Consensus       148 KlLAKLAS~~~KP~G~~vl~~~~v~~fL~~LPI~kL~GIG~kt~~k-L~~~lGI~TigDLa~l~~~~L~~~FG~~~G~~L  226 (656)
                      |+|||||++++||+|+++|+++++.+||+++||++|||||++++.+ |. .+||+|+|||++++...|+++||.+.|.+|
T Consensus       223 k~lAKlAs~~~Kp~g~~vv~~~~~~~~L~~lpv~~l~GiG~~~~~~lL~-~lGI~TigdLa~~~~~~L~~~fG~~~g~~L  301 (435)
T 4ecq_A          223 KVLAKLACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASVIE-ILGIEYMGELTQFTESQLQSHFGEKNGSWL  301 (435)
T ss_dssp             HHHHHHHHHHSCSSCEEECCGGGHHHHHHTCBGGGSTTCSSHHHHHHHH-HHTCCBGGGGGGSCHHHHHHHHCHHHHHHH
T ss_pred             HHHHHHHhccCCCCceEEEehhHHHHHHhhCCHHHhcCCCHHHHHHHHH-HcCCCcHHHHhhCCHHHHHHHhCccHHHHH
Confidence            9999999999999999999999999999999999999999999877 65 999999999999999999999995579999


Q ss_pred             HHHHhcCCCcccccccCCCcccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeEEEEEEeeccCCCC
Q 006218          227 WNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDS  306 (656)
Q Consensus       227 ~~~arGiD~~~V~~~~~~KSIs~~~tF~~~~~i~~~eel~~~L~~L~~eL~~RLr~~~~~~~~~a~tvtL~ir~~~~~~~  306 (656)
                      |+.|+|+|+++|.+..++|||++++||+.+.++.+.+++..+|..|+++|+.||+++..++++.|++|+|++++....++
T Consensus       302 ~~~a~G~d~~~v~~~~~~ksi~~~~tf~~~~~i~~~~~l~~~l~~la~~l~~rLr~~~~~~~~~~~~l~v~ir~~~~~~~  381 (435)
T 4ecq_A          302 YAMCRGIEHDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRNDNDRVATQLVVSIRVQGDKRL  381 (435)
T ss_dssp             HHHTTTCCCCCCCCBCSCSCEEEEEECCGGGCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHSEEEEEEEEEEEETTCCSS
T ss_pred             HHHhhCCCCcccCCCCCCCeeeeeEEcCCCCCCCCHHHHHHHHHHHHHHHHHHHHhhhhhcCceEEEEEEEEEeCCCCCC
Confidence            99999999999998888999999999984224889999999999999999999998654568999999999998643222


Q ss_pred             CCCCCcCcceeeCCCcchhhHHhHHHHHHHHHHHHhcccCccccCCCCCCcceeEEEEEecCCee
Q 006218          307 DSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVP  371 (656)
Q Consensus       307 ~s~~~~~sks~~l~~~t~~I~~da~~L~~~al~ll~~~~~~~l~~~~~~~~~ir~lgVsls~L~~  371 (656)
                          ...+++++++.+      ++..|++.++.+|...+....+  ..-..+||.|||++++|++
T Consensus       382 ----~~~~R~~~l~~~------~~~~i~~~a~~L~~~~~~~~~~--~~~~~pir~lgvs~s~f~~  434 (435)
T 4ecq_A          382 ----SSLRRCCALTRY------DAHKMSHDAFTVIKNCNTSGIQ--TEWSPPLTMLFLCATKFSA  434 (435)
T ss_dssp             ----CSEEEEEECCSC------CHHHHHHHHHHHHGGGCCCSST--TEEEEEEEEEEEEEEEEEE
T ss_pred             ----ceeEEeccCCCC------CHHHHHHHHHHHHHHHhhcccc--ccCCCCeeEEEEEEeeccc
Confidence                235899999764      3456777788888776532111  0113479999999999986
>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
>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
>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
>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
>4dez_A POL IV 1, DNA polymerase IV 1; Y-family, transferase; HET: DNA; 2.60A {Mycobacterium smegmatis} 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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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

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 656
d1jiha2389 e.8.1.7 (A:1-389) DNA polymerase eta {Baker's yeas 8e-35
d1t94a2333 e.8.1.7 (A:75-407) DNA polymerase kappa {Human (Ho 5e-33
d1zeta2273 e.8.1.7 (A:27-299) DNA polymerase iota {Human (Hom 1e-31
d1jiha1120 d.240.1.1 (A:390-509) DNA polymerase eta {Baker's 4e-21
d1jx4a2240 e.8.1.7 (A:1-240) DinB homolog (DBH) {Archaeon Sul 9e-19
d1im4a_209 e.8.1.7 (A:) DinB homolog (DBH) {Archaeon Sulfolob 2e-14
>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

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 eta
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  134 bits (337), Expect = 8e-35
 Identities = 62/308 (20%), Positives = 92/308 (29%), Gaps = 54/308 (17%)

Query: 1   MRGDEAKEVCPQIELVQVPVARG---------------------------KADLSSYRNA 33
               EA + C  +  +   V +                            K  L  YR  
Sbjct: 75  DTIQEALKKCSNLIPIHTAVFKKGEDFWQYHDGCGSWVQDPAKQISVEDHKVSLEPYRRE 134

Query: 34  GSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESL------DEVDEEALKSH 86
             + + I        ERASIDEV+LDL      ML       L       +      ++ 
Sbjct: 135 SRKALKIFKSACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAF 194

Query: 87  ILGLESKDGNDSKATVKEWLCRCD------------ADHRDKLLACGVLIVTELRMQVLK 134
           I G    + +      K    + +             D  D +LA G  +   +R  +  
Sbjct: 195 IGGNYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDWDDVILALGSQVCKGIRDSIKD 254

Query: 135 ETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDS--LPIKKMKQLGGKLGT 192
              +T S G++  K + KLAS   KP  QT V    +   LD     I     LGG LG 
Sbjct: 255 ILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGGVLGK 314

Query: 193 SLQNELGVTTVGDLLKFSE---DKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGS 249
            L + L +     +    E   D   +   F     +       S   +          +
Sbjct: 315 ELIDVLDLPHENSIKHIRETWPDNAGQLKEFL-DAKVKQSDYDRSTSNIDPLKTADL--A 371

Query: 250 GKSFPGPR 257
            K F   R
Sbjct: 372 EKLFKLSR 379
>d1t94a2 e.8.1.7 (A:75-407) DNA polymerase kappa {Human (Homo sapiens) [TaxId: 9606]} Length = 333 Back     information, alignment and structure
>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
>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 ?
Query656
d1zeta2273 DNA polymerase iota {Human (Homo sapiens) [TaxId: 100.0
d1t94a2333 DNA polymerase kappa {Human (Homo sapiens) [TaxId: 100.0
d1jx4a2240 DinB homolog (DBH) {Archaeon Sulfolobus solfataric 100.0
d1jiha2389 DNA polymerase eta {Baker's yeast (Saccharomyces c 100.0
d1im4a_209 DinB homolog (DBH) {Archaeon Sulfolobus solfataric 100.0
d1jx4a1101 DinB homolog (DBH) {Archaeon Sulfolobus solfataric 99.34
d1t94a1105 DNA polymerase kappa {Human (Homo sapiens) [TaxId: 99.3
d1jiha1120 DNA polymerase eta {Baker's yeast (Saccharomyces c 99.24
d1k1sa1105 DinB homolog (DBH) {Archaeon Sulfolobus solfataric 99.22
d1zeta1115 DNA polymerase iota {Human (Homo sapiens) [TaxId: 99.18
d1unnc_111 DNA polymerase IV {Escherichia coli [TaxId: 562]} 99.14
d2i1qa160 DNA repair protein Rad51, N-terminal domain {Archa 97.43
d1pzna161 DNA repair protein Rad51, N-terminal domain {Archa 97.04
d1szpa164 DNA repair protein Rad51, N-terminal domain {Baker 96.55
d1kfta_56 Excinuclease UvrC C-terminal domain {Escherichia c 96.38
d2a1ja162 DNA repair endonuclease XPF {Human (Homo sapiens) 95.77
d1b22a_70 DNA repair protein Rad51, N-terminal domain {Human 95.62
d2fmpa257 DNA polymerase beta {Human (Homo sapiens) [TaxId: 94.69
d2bgwa170 DNA repair endonuclease XPF {Aeropyrum pernix [Tax 94.62
d2bcqa257 DNA polymerase lambda {Human (Homo sapiens) [TaxId 94.47
d1x2ia168 ATP-dependent RNA helicase PF2015 {Pyrococcus furi 93.89
d1jmsa360 Terminal deoxynucleotidyl transferase {Mouse (Mus 93.82
d2a1jb178 DNA excision repair protein ERCC-1 {Human (Homo sa 93.69
d1doqa_69 C-terminal domain of RNA polymerase alpha subunit 92.98
d1gm5a2180 RecG "wedge" domain {Thermotoga maritima [TaxId: 2 92.38
d2p6ra2198 Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22 91.52
d1z3eb167 C-terminal domain of RNA polymerase alpha subunit 89.42
d1lb2b_72 C-terminal domain of RNA polymerase alpha subunit 88.78
d1ci4a_89 Barrier-to-autointegration factor, BAF {Human (Hom 80.89
>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=100.00  E-value=2.9e-45  Score=377.63  Aligned_cols=219  Identities=32%  Similarity=0.443  Sum_probs=187.5

Q ss_pred             CcHHHHHHhCCCcEEEeccCcCCCCChHHHHHHHHHHHHHHhhc-CCeEEecCceEEEEccchhHHHhccCCCCCcchhh
Q 006218            1 MRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESLDEVD   79 (656)
Q Consensus         1 Mp~~~AkklCP~LivV~vP~~~~k~d~~~Yr~~S~~V~~IL~~~-~~VE~~SIDEafLDlT~~~~~~L~~~~~~~l~~~~   79 (656)
                      |++.+|+++||++++++      ++||+.|+++|++|+++|.+| |.||++||||+|||+|+.....+.+...+.+.   
T Consensus        53 m~~~~A~~~cP~l~v~~------~~~~~~Y~~~S~~i~~~l~~~~~~ve~~SiDE~flDlt~~~~~~~~~~~~~~~~---  123 (273)
T d1zeta2          53 MNVRDAKEKCPQLVLVN------GEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKRLQQLQSDELS---  123 (273)
T ss_dssp             BCHHHHHHTCTTCCCEE------CCCCHHHHHHHHHHHHHHHHHCSCEEEETTTEEEEECHHHHHHHHHHSCSSGGG---
T ss_pred             CCHHHHHHhCccccccc------cccHHHHHHHHHHHHHHHHHhCCeeEEEcCcceEEeccccccccccccccchhh---
Confidence            89999999999998885      379999999999999999998 89999999999999999876655433322111   


Q ss_pred             HHhhhhhcccCccCCCCCchhhhhhhhhccCccchhhhhhhHHHHHHHHHHHHHHHhCCceeEeccCcHHHHHHHhcCCC
Q 006218           80 EEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNK  159 (656)
Q Consensus        80 ~e~~~s~l~g~~~~~g~~~~~~v~~w~~~~~~~~~d~ll~~~~~iA~~IR~~I~~~tGlt~SiGIA~NKlLAKLAS~~~K  159 (656)
                      .....+|+++....               .-.++.+..+..+..+|++||++|++++|||||||||+||+|||||++++|
T Consensus       124 ~~~~~~~~~~~~~~---------------~~~d~~~~~~~~~~~~a~~ir~~I~~~~g~~~svGIa~nk~lAKlAs~~~K  188 (273)
T d1zeta2         124 AVTVSGHVYNNQSI---------------NLLDVLHIRLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFK  188 (273)
T ss_dssp             GCCCCSEEGGGCCC---------------CTTCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEESSHHHHHHHHTSSC
T ss_pred             cccccccccccccc---------------cchhhhhhhcccHHHHHHHHHHHHHHHhCCCeEeeecCcHHHHHHHhhccc
Confidence            11123344442210               112345566778899999999999999999999999999999999999999


Q ss_pred             CCCeeecCcccHHhhcccC-CCccccCCchHHHHHHHHhcCCcchhhhhcCCHHHHHHhhcccchhhHHHHHhcCCCccc
Q 006218          160 PAQQTTVPFSSVKGLLDSL-PIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEV  238 (656)
Q Consensus       160 P~G~~vl~~~~v~~fL~~L-PI~kL~GIG~kt~~kL~~~lGI~TigDLa~l~~~~L~~~FG~~~G~~L~~~arGiD~~~V  238 (656)
                      |||+++|.++++..||+++ ||++|||||++++++|+ .+||+||+||++++...|+++||.+.|.+||+.++|+|.+||
T Consensus       189 P~g~~vi~~~~~~~~l~~l~pv~~l~GiG~~~~~~L~-~~GI~ti~dl~~~~~~~L~~~fG~~~g~~l~~~a~G~D~~pV  267 (273)
T d1zeta2         189 PNQQTVLLPESCQHLIHSLNHIKEIPGIGYKTAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPV  267 (273)
T ss_dssp             SSCEEECCGGGHHHHHTTCSSGGGSTTCCHHHHHHHH-TTTCCSHHHHHHSCHHHHHHHHHHHHHHHHHHHHTTCCCCCC
T ss_pred             cccccchhhhhHHHHHhcCcchHHhcCCCHHHHHHHH-HhCCCcHHHHhcCCHHHHHHHHCHHHHHHHHHHHcCcCCCCC
Confidence            9999999999999999998 79999999999999997 999999999999999999999998779999999999999999


Q ss_pred             ccccCC
Q 006218          239 QARLLP  244 (656)
Q Consensus       239 ~~~~~~  244 (656)
                      .+..+|
T Consensus       268 ~~~~~P  273 (273)
T d1zeta2         268 ILSGPP  273 (273)
T ss_dssp             CCCCSC
T ss_pred             CCCCCC
Confidence            877654
>d1t94a2 e.8.1.7 (A:75-407) DNA polymerase kappa {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jx4a2 e.8.1.7 (A:1-240) DinB homolog (DBH) {Archaeon Sulfolobus solfataricus, DNA polymerase IV [TaxId: 2287]} 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
>d1jiha1 d.240.1.1 (A:390-509) DNA polymerase eta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} 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
>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
>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
>d1kfta_ a.60.2.3 (A:) Excinuclease UvrC C-terminal domain {Escherichia coli [TaxId: 562]} 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
>d1b22a_ a.60.4.1 (A:) DNA repair protein Rad51, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} 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
>d2bgwa1 a.60.2.5 (A:160-229) DNA repair endonuclease XPF {Aeropyrum pernix [TaxId: 56636]} 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
>d1x2ia1 a.60.2.5 (A:2-69) ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]} 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
>d2a1jb1 a.60.2.5 (B:219-296) DNA excision repair protein ERCC-1 {Human (Homo sapiens) [TaxId: 9606]} 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
>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
>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