Citrus Sinensis ID: 001089

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-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910-------920-------930-------940-------950-------960-------970-------980-------990------1000------1010------1020------1030------1040------1050------1060------1070------1080------1090------1100------1110------1120------1130------1140------1150------116

MTKTEETEVIVLVSLFNWIQKTKPAAKKRSKFRKFLDTYCDSVDYFSALRLILPSLDRERGSYGLKESVLANCLIDALGMSKDSADAVRLINWRKGGAAPNAGNFPMVAAEVLQRRQGMISGGLTIKELNDLLDRLASSENRAEKISVLSTLIKKTNAQEMKWIIMIILKDLKLGISEKSIFHEFHPDAEDLFNVTCDLKLVCEKLKDRNQRHKRQDIEVGKAVRPQLAMRIGDAHAAWRKLHGKEVVIECKFDGDRIQIHKNGSEIHYFSRSFLDHSEYGHAMSKIIEQNVLVDRCILDGEMLVWDTSLNRFAEFGSNQEIAKAARDGLSSDRQLCYFAFDVLYVGDTSVIHQSLKERHELLQKVVKPSKGRLETLVPDHGLNSHVRPQGEPCWSLVAHNVDEVEKFFKETIENRDEGIVLKDLGSKWEPGDRSGKWLKLKPEYIRAGSDLDVLIIGGYYGSGRRGGEVAQFLVALAERPAPDTYPRRFISFCRVGTGLSDEELDAVVTKLKPYFRKYEYPKRAPPSFYQVTNNSKERPDVWIESPEKSIILSITSDIRTIRSEVFSAPYSLRFPRIDRVRYDKPWHDCLDVQSFVELVHSSNGTTQKGKEYGGLQDDKPKQFRSSRKGEKKNVSIVPSHFLQTDVSDIKGETSIFSDMVFYFVNVPPAYSLDSLHKMVVENGGTFSMNLNNSVTHCVAADNKGLKYEAAKRRGDVIHYSWVLDCCSQKKLLQLQPKYYLHLSDSSKKKLQEEVDEFSDLYFWDLDLADIKQLLSNVDRSEDPKTIDYYKKKYCPQDKWSCFHGCCIYFYHSTEPLSPDWEVLLGLALRRLKLEISFHGGKVCNNLANATHVVVLSVLGYDVNFNSLTESFTAREKHLLWNKKLHVVRSQWLEDCLAKEQKSEEYEYSLKPTGMQESYLELCEEDLDMEEPSSTLETSDKQNVSSFPDGDGKQRGTRGVSPASPKREGKRKRGRPAGGSAKKRKSTVNLARRKRPHVRNKPSKIYQNESDESNASDETEKKEEINREENHEDREMDDEENLETRQTNVVEDLESLDRGKALQQEVVKDFGKEKQTVRAPDIEMRERYHSKDSETTDKQQVDAVQAMLLDMIPSLGMKNEKTTNPIPKEESSSAEPSAEPTKKKKVSYKDIASKLLKDW

ccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccHHHHHHHHHccccccccccccccHHHHHHHHHHHHcccccHHHHHHHHHHcccccccccccHHHHHHHHHHcccccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHccHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHcccEEEEEEcccEEEEEEEEEccEEEEEEcccccccccccHHHHHHHHccccccEEEEEEEEEEEcccccEEcccHHHHHHHHHcccccccccEEEEEEEEEEEccEEcccccHHHHHHHHHHHcccccccEEEEccccccccccccccccccccccccHHHHHHHHHHHHHccccEEEEccccccccccccccccEEEccccccccccccEEEEEEEEcccccccccccEEEEEEEccccccccccEEEEEEEcccccHHHHHHHHHHHcccccccccccccccccEEEcccccccccEEEEccccEEEEEEEccccccccccccccccccccEEEEEEccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccccHHHHHHHHHHcccEEEEEcccccEEEEEEccccHHHHHHHccccEEEccHHHHHHHcccccccccccEEcccHHHHHHHHHHHccccccccccccHHHHHHHHHHccccccccHHHHHHHHcccccccccccccEEEEEcccccccccHHHHHHHHHHHHHHHHHHcccEEEccccccEEEEEEccccccccccccHHHHHHHHHHHcccccccEEcccHHHHHHHccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHccc

ccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccHHEEEEEccccccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHcccccccccccHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHccccHHHHHHHHHcccccccccEccccccccHHHccccccHHHHHHHcccccEEEEEEEcccEEEEEEcccEEEEEEccccccccccccHHHHHHHcccccEEEEEcEEEEEccccccEccccccHHHHHHcccHHHccccEEEEEEEEEEEcccccccccHHHHHHHHHHHccccccEEEEEEcccccccccccccccccEEccccHHHHHHHHHHHHHccccEEEEEccccccccccccccEEEEcHHHcccccccEEEEEEEEcccccccccHHHEEEEEEccccccccccEEEEEEEEcccccHHHHHHHHHHHHHHccccccccccccccEEEEEcccccccEEEcccccEEEEEEEEccccccHHHHccccEEEcccEEEEcccccHHHcccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccHccccccccccccccccccEEEEEEcccccccHHHHHHHHHHcccEEEEccccccEEEEEEccccHHHHHHcccccEEcHHHHHHHHHccccccccccEEEEEcHHHHHHHHHHHcccccccEEcccHHHHHHHHHHccccccccHHHHHHHHcccHcccccccccEEEEEcccEcccccHHHHcccHHHHHEEEEEEcccEEcccccccEEEEEEccccccccHHHHHHHHHHHHHHHHcccccEEEcHHHHHHHHHccccccHccEEEccccccEcccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccHccHHHHccccccEccccccccccccccccHccEccccccccccccccccccccccccEEEcccccccccccHEEcccccccccccccccEEHcHHcccccccccccEcccHHHHHHHHHcHcHccccccccccccHHcccccccccccccccEEcHHHHHHHHHccc

MTKTEETEVIVLVSLFNWIQKTKPAAKKRSKFRKFLDTYCDSVDYFSALRLILPsldrergsyglkeSVLANCLIDalgmskdsADAVRLINwrkggaapnagnfPMVAAEVLQRRQGMISGGLTIKELNDLLDRLASSENRAEKISVLSTLIKKTNAQEMKWIIMIILKDLklgiseksifhefhpdaedlfNVTCDLKLVCEKLKDRNqrhkrqdievgkavRPQLAMRIGDAHAAWRKLHGKEVVIeckfdgdriqihkngseihyfsrsfldhseyghAMSKIIEQNVLVDRCILDGEMLVWDTSLNrfaefgsnQEIAKAARDGLSSDRQLCYFAFDVLYVGDTSVIHQSLKERHELLQKvvkpskgrletlvpdhglnshvrpqgepcwslvaHNVDEVEKFFKETIENrdegivlkdlgskwepgdrsgkwlklkpeyiragsdlDVLIIGgyygsgrrgGEVAQFLVALaerpapdtyprrfisfcrvgtglsdeELDAVVTKLKPyfrkyeypkrappsfyqvtnnskerpdvwiespeksIILSITSDIRTIRSevfsapyslrfpridrvrydkpwhdcldvqSFVELVhssngttqkgkeygglqddkpkqfrssrkgekknvsivpshflqtdvsdikgetsiFSDMVFYFvnvppaysldsLHKMVVENggtfsmnlNNSVTHCVAADNKGLKYEAAKRRGDVIHYSWVLDCcsqkkllqlqpkyylhlsdSSKKKLQEEVDEFSDLYFWDLDLADIKQLLsnvdrsedpktidyykkkycpqdkwscfhgcciyfyhsteplspdWEVLLGLALRRLKLEISfhggkvcnnlaNATHVVVLSVLGYDVNFNSLTESFTAREKHLLWNKKLHVVRSQWLEDCLAKEQkseeyeyslkptgmqESYLELCEedldmeepsstletsdkqnvssfpdgdgkqrgtrgvspaspkregkrkrgrpaggsakkrKSTVNLarrkrphvrnkpskiyqnesdesnasdetekkEEINreenhedremddeenLETRQTNVVEDLESLDRGKALQQEVVKDFGkekqtvrapdiemreryhskdsettdKQQVDAVQAMLLDMipslgmknekttnpipkeesssaepsaeptkkkkvSYKDIASKLLKDW

MTKTEETEVIVLVslfnwiqktkpaakkrskfrKFLDTYCDSVDYFSALRLILPSLDRERGSYGLKESVLANCLIDALGMSKDSADAVRLINWRkggaapnagNFPMVAAEVLQRRQGMISGGLTIKELNDLLDRLASSENRAEKISVLSTLIKKTNAQEMKWIIMIILKDLKLGISEKSIFHEFHPDAEDLFNVTCDLKLVCEKLkdrnqrhkrqdievgkavrpqLAMRIGDAHAAWRKLHGKEVVIECKFDGDRIQIHKNGSEIHYFSRSFLDHSEYGHAMSKIIEQNVLVDRCILDGEMLVWDTSLNRFAEFGSNQEIAKAARDGLSSDRQLCYFAFDVLYVGDTSVIHQSLKERHELLQKVVKPSKGRLETLVPDHGLNSHVRPQGEPCWSLVAHNVDEVEKFFKetienrdegivlkdlgskwepgdrsgkwlklkpeyiragsdldVLIIGGYYGSGRRGGEVAQFLVALAerpapdtyprrFISFCRvgtglsdeelDAVVTKLKPYFrkyeypkrappsfyqvtnnskerpdvwiespekSIILSITSDIRTIRSevfsapyslrfpriDRVRYDKPWHDCLDVQSFVELVHSsngttqkgkeygglqddkpkqfrssrkgekknvsivpshflqtdvsdIKGETSIFSDMVFYFVNVPPAYSLDSLHKMVVENGGTFSMNLNNSVTHCVAADNKGLKYEAAKRRGDVIHYSWVLDCCSQKKLLQLQPKYYLHLSDSSKKKLQEEVDEFSDLYFWDLDLADIKQLlsnvdrsedpktiDYYKKKYCPQDKWSCFHGCCIYFYHSTEPLSPDWEVLLGLALRRLKLEISFHGGKVCNNLANATHVVVLSVLGYDVNFNSLTESFTAREKHLLWNKKLHVVRSQWLEDCLAKEQkseeyeyslkptgmQESYLELCEEDLDMEEPSstletsdkqnvssfpdgdgkqrgtrgvspaspkregkrkrgrpaggsakkrkstvnlarrkrphvrnkpskiyqnesdesnasdetekkeeinreenhedremddeenletrqtnvvedlesldrGKALQQevvkdfgkekqtvrapdiemreryhskdsettdkqQVDAVQAMLLDMIPSLGMKNEKTtnpipkeesssaepsaeptkkkkvsykDIASKLLKDW

MTKTEETEVIVLVSLFNWIQKTKPAAKKRSKFRKFLDTYCDSVDYFSALRLILPSLDRERGSYGLKESVLANCLIDALGMSKDSADAVRLINWRKGGAAPNAGNFPMVAAEVLQRRQGMISGGLTIKELNDLLDRLASSENRAEKISVLSTLIKKTNAQEMKWIIMIILKDLKLGISEKSIFHEFHPDAEDLFNVTCDLKLVCEKLKDRNQRHKRQDIEVGKAVRPQLAMRIGDAHAAWRKLHGKEVVIECKFDGDRIQIHKNGSEIHYFSRSFLDHSEYGHAMSKIIEQNVLVDRCILDGEMLVWDTSLNRFAEFGSNQEIAKAARDGLSSDRQLCYFAFDVLYVGDTSVIHQSLKERHELLQKVVKPSKGRLETLVPDHGLNSHVRPQGEPCWSLVAHNVDEVEKFFKETIENRDEGIVLKDLGSKWEPGDRSGKWLKLKPEYIRAGSDLDVLIIggyygsgrrggEVAQFLVALAERPAPDTYPRRFISFCRVGTGLSDEELDAVVTKLKPYFRKYEYPKRAPPSFYQVTNNSKERPDVWIESPEKSIILSITSDIRTIRSEVFSAPYSLRFPRIDRVRYDKPWHDCLDVQSFVELVHSSNGTTQKGKEYGGLQDDKPKQFRSSRKGEKKNVSIVPSHFLQTDVSDIKGETSIFSDMVFYFVNVPPAYSLDSLHKMVVENGGTFSMNLNNSVTHCVAADNKGLKYEAAKRRGDVIHYSWVLDCCSqkkllqlqpkYYLHLSDSSKKKLQEEVDEFSDLYFWDLDLADIKQLLSNVDRSEDPKTIDYYKKKYCPQDKWSCFHGCCIYFYHSTEPLSPDWEVllglalrrlklEISFHGGKVCNNLANATHVVVLSVLGYDVNFNSLTESFTAREKHLLWNKKLHVVRSQWLEDCLAKEQKSEEYEYSLKPTGMQESYlelceedldmeePSSTLETSDKQNVSSFPDGDGKQRGTRGVSPAspkregkrkrgrpaggsakkrkSTVNLARRKRPHVRNKPSKIYQNESDESNASdetekkeeinreenhedreMDDEENLETRQTNVVEDLESLDRGKALQQEVVKDFGKEKQTVRAPDIEMRERYHSKDSETTDKQQVDAVQAMLLDMIPSLGMKNEKTTNPIPKeesssaepsaepTKKKKVSYKDIASKLLKDW

*******EVIVLVSLFNWIQKTKPAAKKRSKFRKFLDTYCDSVDYFSALRLILPSLDRERGSYGLKESVLANCLIDALGMSKDSADAVRLINWRKGGAAPNAGNFPMVAAEVLQRRQGMISGGLTIKELNDLLDRLA******EKISVLSTLIKKTNAQEMKWIIMIILKDLKLGISEKSIFHEFHPDAEDLFNVTCDLKLVCEKLKD*********IEVGKAVRPQLAMRIGDAHAAWRKLHGKEVVIECKFDGDRIQIHKNGSEIHYFSRSFLDHSEYGHAMSKIIEQNVLVDRCILDGEMLVWDTSLNRFAEFGSNQEIAKAARDGLSSDRQLCYFAFDVLYVGDTSVIHQSLKERHELLQKVV********TLV***GLN*HVRPQGEPCWSLVAHNVDEVEKFFKETIENRDEGIVLKDLGSKWEPGDRSGKWLKLKPEYIRAGSDLDVLIIGGYYGSGRRGGEVAQFLVALAERPAPDTYPRRFISFCRVGTGLSDEELDAVVTKLKPYFRKYEYPKRAPPSFYQV********DVWIESPEKSIILSITSDIRTIRSEVFSAPYSLRFPRIDRVRYDKPWHDCLDVQSFVELVH***********************************IVPSHFLQTDVSDIKGETSIFSDMVFYFVNVPPAYSLDSLHKMVVENGGTFSMNLNNSVTHCVAADNKGLKYEAAKRRGDVIHYSWVLDCCSQKKLLQLQPKYYLHLS*********EVDEFSDLYFWDLDLADIKQLLSNVDRSEDPKTIDYYKKKYCPQDKWSCFHGCCIYFYHSTEPLSPDWEVLLGLALRRLKLEISFHGGKVCNNLANATHVVVLSVLGYDVNFNSLTESFTAREKHLLWNKKLHVVRSQWLEDCLA*********************************************************************************************************************************************************************************************************************************************************************

****EETEVIVLVSLFNWIQKTKPAAKKRSKFRKFLDTYCDSVDYFSALRLILPSLDRERGSYGLKESVLANCLIDALGMSKDSADAVRLINWRKGGAAPNAGNFPMVA****************IKELNDLL*****************TLIKKTNAQEMKWIIMIILKDLKLGISEKSIFHEFHPDAEDLFNVTCDLKLVCEKLKDRNQR*KRQDIEVGKAVRPQLAMRIGDAHAAWRKLHGKEVVIECKFDGDRIQIHKNGSEIHYFSRSFLDHSEYGHAMSKIIEQNVLVDRCILDGEMLVWDTSLNRFAEFGS***********LSSDRQLCYFAFDVLYVGDTSVIHQSLKERHELLQKVVKPSKGRLETLVPDHGLNSHVRPQGEPCWSLVAHNVDEVEKFFKETIENRDEGIVLKDLGSKWEPGDRSGKWLKLKPEYIRAGSDLDVLIIGGYYGSGRRGGEVAQFLVALAERPAPDTYPRRFISFCRVGTGLSDEELDAVVTKLKPYFRKYEYPKRAPPSFYQVTNNSKERPDVWIESPEKSIILSITSDIRTIRSEVFSAPYSLRFPRIDRVRYDKPWHDCLDVQSFVE********************************************************SIFSDMVFYFVNVPPAYSLDSLHKMVVENGGTFSMNLNNSVTHCVAADNKGLKYEAAKRRGDVIHYSWVLDCCSQKKLLQLQPKYYLHLSDSSKKKLQEEVDEFSDLYFWDLDLADIKQ*******************KYCPQDKWSCFHGCCIYFYHSTEPLSPDWEVLLGLALRRLKLEISFHGGKVCNNLANATHVVVLSVLGYDV******************NKKLHVVRSQWLEDCLAKEQKSEEYEYSLKPTG*****************************************************************************************************************************************************************************************QVDAVQAMLLDMIP**********************************YKDIASKLLKDW

MTKTEETEVIVLVSLFNWIQK*********KFRKFLDTYCDSVDYFSALRLILPSLDRERGSYGLKESVLANCLIDALGMSKDSADAVRLINWRKGGAAPNAGNFPMVAAEVLQRRQGMISGGLTIKELNDLLDRLASSENRAEKISVLSTLIKKTNAQEMKWIIMIILKDLKLGISEKSIFHEFHPDAEDLFNVTCDLKLVCEKLKDRNQRHKRQDIEVGKAVRPQLAMRIGDAHAAWRKLHGKEVVIECKFDGDRIQIHKNGSEIHYFSRSFLDHSEYGHAMSKIIEQNVLVDRCILDGEMLVWDTSLNRFAEFGSNQEIAKAARDGLSSDRQLCYFAFDVLYVGDTSVIHQSLKERHELLQKVVKPSKGRLETLVPDHGLNSHVRPQGEPCWSLVAHNVDEVEKFFKETIENRDEGIVLKDLGSKWEPGDRSGKWLKLKPEYIRAGSDLDVLIIGGYYGSGRRGGEVAQFLVALAERPAPDTYPRRFISFCRVGTGLSDEELDAVVTKLKPYFRKYEYPKRAPPSFYQVTNNSKERPDVWIESPEKSIILSITSDIRTIRSEVFSAPYSLRFPRIDRVRYDKPWHDCLDVQSFVELVHSSNGTTQKGKEYGGLQDDK**************VSIVPSHFLQTDVSDIKGETSIFSDMVFYFVNVPPAYSLDSLHKMVVENGGTFSMNLNNSVTHCVAADNKGLKYEAAKRRGDVIHYSWVLDCCSQKKLLQLQPKYYLHLSDSSKKKLQEEVDEFSDLYFWDLDLADIKQLLSNVDRSEDPKTIDYYKKKYCPQDKWSCFHGCCIYFYHSTEPLSPDWEVLLGLALRRLKLEISFHGGKVCNNLANATHVVVLSVLGYDVNFNSLTESFTAREKHLLWNKKLHVVRSQWLEDCLAKEQKSEEYEYSLKPTGMQESYLELCEED*****************************************************************RRKRPHVRNKPSKI***************************************RQTNVVEDLESLDRGKALQQEVVKDFGKEKQTVRAPDIEMRE************QQVDAVQAMLLDMIPSLGMKNEKTT************************YKDIASKLLKDW

****EETEVIVLVSLFNWIQKTKPAAKKRSKFRKFLDTYCDSVDYFSALRLILPSLDRERGSYGLKESVLANCLIDALGMSKDSADAVRLINWRKGGAAPNAGNFPMVAAEVLQRRQGMISGGLTIKELNDLLDRLASSENRAEKISVLSTLIKKTNAQEMKWIIMIILKDLKLGISEKSIFHEFHPDAEDLFNVTCDLKLVCEKLKDRNQRHKRQDIEVGKAVRPQLAMRIGDAHAAWRKLHGKEVVIECKFDGDRIQIHKNGSEIHYFSRSFLDHSEYGHAMSKIIEQNVLVDRCILDGEMLVWDTSLNRFAEFGSNQEIAKAARDGLSSDRQLCYFAFDVLYVGDTSVIHQSLKERHELLQKVVKPSKGRLETLVPDHGLNSHVRPQGEPCWSLVAHNVDEVEKFFKETIENRDEGIVLKDLGSKWEPGDRSGKWLKLKPEYIRAGSDLDVLIIGGYYGSGRRGGEVAQFLVALAERPAPDTYPRRFISFCRVGTGLSDEELDAVVTKLKPYFRKYEYPKRAPPSFYQVTNNSKERPDVWIESPEKSIILSITSDIRTIRSEVFSAPYSLRFPRIDRVRYDKPWHDCLDVQSFVELVHSSNGT****************************************VSDIKGETSIFSDMVFYFVNVPPAYSLDSLHKMVVENGGTFSMNLNNSVTHCVAADNKGLKYEAAKRRGDVIHYSWVLDCCSQKKLLQLQPKYYLHLSDSSKKKLQEEVDEFSDLYFWDLDLADIKQLLSNVDRSEDPKTIDYYKKKYCPQDKWSCFHGCCIYFYHSTEPLSPDWEVLLGLALRRLKLEISFHGGKVCNNLANATHVVVLSVLGYDVNFNSLTESFTAREKHLLWNKKLHVVRSQWLEDCLAKEQKSEEYEYSLKPTGMQESYL*********************************************************************************************************************************************LQ*******************E*R*********TTDKQQVDAVQAMLLDMIPSLGM*************************KKKVSYKDIASKLLKDW

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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MTKTEETEVIVLVSLFNWIQKTKPAAKKRSKFRKFLDTYCDSVDYFSALRLILPSLDRERGSYGLKESVLANCLIDALGMSKDSADAVRLINWRKGGAAPNAGNFPMVAAEVLQRRQGMISGGLTxxxxxxxxxxxxxxxxxxxxxSVLSTLIKKTNAQEMKWIIMIILKDLKLGISEKSIFHEFHPDAEDLFNVTCDLKLVCEKLKDRNQRHKRQDIEVGKAVRPQLAMRIGDAHAAWRKLHGKEVVIECKFDGDRIQIHKNGSEIHYFSRSFLDHSEYGHAMSKIIEQNVLVDRCILDGEMLVWDTSLNRFAEFGSNQEIAKAARDGLSSDRQLCYFAFDVLYVGDTSVIHQSLKERHELLQKVVKPSKGRLETLVPDHGLNSHVRPQGEPCWSLVAHNVDEVEKFFKETIENRDEGIVLKDLGSKWEPGDRSGKWLKLKPEYIRAGSDLDVLIIGGYYGSGRRGGEVAQFLVALAERPAPDTYPRRFISFCRVGTGLSDEELDAVVTKLKPYFRKYEYPKRAPPSFYQVTNNSKERPDVWIESPEKSIILSITSDIRTIRSEVFSAPYSLRFPRIDRVRYDKPWHDCLDVQSFVELVHSSNGTTQKGKEYGGLQDDKPKQFRSSRKGEKKNVSIVPSHFLQTDVSDIKGETSIFSDMVFYFVNVPPAYSLDSLHKMVVENGGTFSMNLNNSVTHCVAADNKGLKYEAAKRRGDVIHYSWVLDCCSQKKLLQLQPKYYLHLSDSSKKKLQEEVDEFSDLYFWDLDLADIKQLLSNVDRSEDPKTIDYYKKKYCPQDKWSCFHGCCIYFYHSTEPLSPDWEVLLGLALRRLKLEISFHGGKVCNNLANATHVVVLSVLGYDVNFNSLTESFTAREKHLLWNKKLHVVRSQWLEDCLAKEQKSEEYEYSLKPTGMQESYLELCEEDLDMEEPSSTLETSDKQNVSSFPDGDGKQRGTRGVSPASPKREGKRKRGRPAGGSAKKRKSTVNLARRKRPHVRNKPSKIYQxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxETRQTNVVEDLESLDRGKALQQEVVKDFGKEKQTVRAPDIEMRERYHSKDSETTDKQQVDAVQAMLLDMIPSLGMKNEKTTNPIPKEESSSAEPSAEPTKKKKVSYKDIASKLLKDW

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
Query		1159	2.2.26 [Sep-21-2011]
Q9LL84		1219	DNA ligase 4 OS=Arabidops	yes	no	0.968	0.921	0.614	0.0
Q7X7E9		1322	Putative DNA ligase 4 OS=	yes	no	0.517	0.453	0.656	0.0
Q5R6L3		911	DNA ligase 4 OS=Pongo abe	yes	no	0.736	0.937	0.322	1e-126
P49917		911	DNA ligase 4 OS=Homo sapi	yes	no	0.736	0.937	0.321	1e-125
Q8BTF7		911	DNA ligase 4 OS=Mus muscu	yes	no	0.737	0.938	0.324	1e-122
Q90YB1		912	DNA ligase 4 OS=Gallus ga	yes	no	0.735	0.934	0.327	1e-120
Q54CR9		1088	DNA ligase 4 OS=Dictyoste	yes	no	0.708	0.754	0.309	1e-113
Q2U6A1		1006	DNA ligase 4 OS=Aspergill	yes	no	0.721	0.831	0.286	7e-96
Q6C8A3		956	DNA ligase 4 OS=Yarrowia	yes	no	0.633	0.767	0.315	3e-95
Q7Z7W5		1025	DNA ligase 4 OS=Coprinops	N/A	no	0.602	0.680	0.322	1e-89

>sp\|Q9LL84\|DNLI4_ARATH DNA ligase 4 OS=Arabidopsis thaliana GN=LIG4 PE=1 SV=1	Back alignment and function desciption

 Score = 1487 bits (3849), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 769/1251 (61%), Positives = 925/1251 (73%), Gaps = 128/1251 (10%)

Query: 4    TEETEVIVLVSLFNWIQKTKPAAKKRSKFRKFLDTYCDSVDYFSALRLILPSLDRERGSY 63
            TEE +  VLVSLFNWIQK+K +++KRSKFRKFLDTYC   DYF A+RLI+PSLDRERGSY
Sbjct: 2    TEEIKFSVLVSLFNWIQKSKTSSQKRSKFRKFLDTYCKPSDYFVAVRLIIPSLDRERGSY 61

Query: 64   GLKESVLANCLIDALGMSKDSADAVRLINWRKGG---AAPNAGNFPMVAAEVLQRRQGMI 120
            GLKESVLA CLIDALG+S+D+ DAVRL+NWRKGG   A  NAGNF ++AAEVLQRRQGM 
Sbjct: 62   GLKESVLATCLIDALGISRDAPDAVRLLNWRKGGTAKAGANAGNFSLIAAEVLQRRQGMA 121

Query: 121  SGGLTIKELNDLLDRLASSENRAEKISVLSTLIKKTNAQEMKWIIMIILKDLKLGISEKS 180
            SGGLTIKELNDLLDRLASSENRAEK  VLSTLI+KTNAQEMKW+I IILKDLKLG+SEKS
Sbjct: 122  SGGLTIKELNDLLDRLASSENRAEKTLVLSTLIQKTNAQEMKWVIRIILKDLKLGMSEKS 181

Query: 181  IFHEFHPDAEDLFNVTCDLKLVCEKLKDRNQRHKRQDIEVGKAVRPQLAMRIGDAHAAWR 240
            IF EFHPDAEDLFNVTCDLKLVCEKL+DR+QRHKRQDIEVGKAVRPQLAMRIGD +AAW+
Sbjct: 182  IFQEFHPDAEDLFNVTCDLKLVCEKLRDRHQRHKRQDIEVGKAVRPQLAMRIGDVNAAWK 241

Query: 241  KLHGKEVVIECKFDGDRIQIHKNGSEIHYFSRSFLDHSEYGHAMSKIIEQNVLVDRCILD 300
            KLHGK+VV ECKFDGDRIQIHKNG++IHYFSR+FLDHSEY HAMS +I QN+LVD+CILD
Sbjct: 242  KLHGKDVVAECKFDGDRIQIHKNGTDIHYFSRNFLDHSEYAHAMSDLIVQNILVDKCILD 301

Query: 301  GEMLVWDTSLNRFAEFGSNQEIAKAARDGLSSDRQLCYFAFDVLYVGDTSVIHQSLKERH 360
            GEMLVWDTSLNRFAEFGSNQEIAKAAR+GL S +QLCY AFDVLYVGDTSVIHQSLKERH
Sbjct: 302  GEMLVWDTSLNRFAEFGSNQEIAKAAREGLDSHKQLCYVAFDVLYVGDTSVIHQSLKERH 361

Query: 361  ELLQKVVKPSKGRLETLVPDHGLNSHVRPQGEPCWSLVAHNVDEVEKFFKETIENRDEGI 420
            ELL+KVVKP KGRLE LVP+ GLN H RP GEP WS+V H   +VE+FFKET+ENRDEGI
Sbjct: 362  ELLKKVVKPLKGRLEVLVPEGGLNVH-RPSGEPSWSIVVHAAADVERFFKETVENRDEGI 420

Query: 421  VLKDLGSKWEPGDRSGKWLKLKPEYIRAGSDLDVLIIGGYYGSGRRGGEVAQFLVALAER 480
            VLKDL SKWEPGDRSGKW+KLKPEYIRAG+DLDVLIIGGYYGSGRRGGEVAQFLVALA+R
Sbjct: 421  VLKDLESKWEPGDRSGKWMKLKPEYIRAGADLDVLIIGGYYGSGRRGGEVAQFLVALADR 480

Query: 481  PAPDTYPRRFISFCRVGTGLSDEELDAVVTKLKPYFRKYEYPKRAPPSFYQVTNNSKERP 540
               + YPRRF+SFCRVGTGLSD+EL+ VV+KLKPYFRK E+PK+APPSFYQVTN+SKERP
Sbjct: 481  AEANVYPRRFMSFCRVGTGLSDDELNTVVSKLKPYFRKNEHPKKAPPSFYQVTNHSKERP 540

Query: 541  DVWIESPEKSIILSITSDIRTIRSEVFSAPYSLRFPRIDRVRYDKPWHDCLDVQSFVELV 600
            DVWI+SPEKSIILSITSDIRTIRSEVF APYSLRFPRID+VRYDKPWH+CLDVQ+FVELV
Sbjct: 541  DVWIDSPEKSIILSITSDIRTIRSEVFVAPYSLRFPRIDKVRYDKPWHECLDVQAFVELV 600

Query: 601  HSSNGTTQKGKEYGGLQDDKPKQFRSSRKGEKKNVSIVPSHFLQTDVSDIKGETSIFSDM 660
            +SSNGTTQK KE    QD+ PK  +SS++GEKKNVS+VPS F+QTDVSDIKG+TSIFS+M
Sbjct: 601  NSSNGTTQKQKESESTQDN-PKVNKSSKRGEKKNVSLVPSQFIQTDVSDIKGKTSIFSNM 659

Query: 661  VFYFVNVPPAYSLDSLHKMVVENGGTFSMNLNNSVTHCVAADNKGLKYEAAKRRGDVIHY 720
            +FYFVNVP ++SL++ HKMVVENGG FSMNLNNSVTHC+AA++ G+KY+AAKR+ DVIH+
Sbjct: 660  IFYFVNVPRSHSLETFHKMVVENGGKFSMNLNNSVTHCIAAESSGIKYQAAKRQRDVIHF 719

Query: 721  SWVLDCCSQKKLLQLQPKYYLHLSDSSKKKLQEEVDEFSDLYFWDLDLADIKQLLSNVDR 780
            SWVLDCCS+ K+L L PKY+LHL+D+S+ KLQ+++DEFSD Y+WDLDL  +KQ+LSN  +
Sbjct: 720  SWVLDCCSRNKMLPLLPKYFLHLTDASRTKLQDDIDEFSDSYYWDLDLEGLKQVLSNAKQ 779

Query: 781  SEDPKTIDYYKKKYCPQDKWSCFHGCCIYFYHSTEPLSPDWEVLLGLALRRLKLEISFHG 840
            SED K+IDYYKKK CP+ +WSC   CC+YFY  ++ LS + E LLG+  +RL LE+   G
Sbjct: 780  SEDSKSIDYYKKKLCPEKRWSCLLSCCVYFYPYSQTLSTEEEALLGIMAKRLMLEVLMAG 839

Query: 841  GKVCNNLANATHVVVLSVLGYDVNFNSLTESFTAREKHLLWNKKLHVVRSQWLEDCLAKE 900
            GKV NNLA+A+H+VVL++    ++F  +++SF+  EK LL  K+LHVV S WLE+ L +E
Sbjct: 840  GKVSNNLAHASHLVVLAMAEEPLDFTLVSKSFSEMEKRLLLKKRLHVVSSHWLEESLQRE 899

Query: 901  QKSEEYEYSLKPTGMQESYLELCEEDLDMEEPSSTLETSDKQNVSSFPDGDGKQRGTRGV 960
            +K  E  Y+L+P  M+ES         D EE   +    D   V+S      K+      
Sbjct: 900  EKLCEDVYTLRPKYMEES---------DTEESDKS--EHDTTEVASQGSAQTKE------ 942

Query: 961  SPASPKREGKRKRGRPAGGSAKKRKSTVNLARRKRPHVRNKPSKIYQNESDESNASDET- 1019
             PAS K      RGR    + K+ +S+ N  +R +     +PSKI  +E++ES+AS+E  
Sbjct: 943  -PASSKIAITSSRGRSNTRAVKRGRSSTNSLQRVQRRRGKQPSKISGDETEESDASEEKV 1001

Query: 1020 ----------------------------------------------EKKEEINREENHED 1033
                                                          +K  +I  +E+ E+
Sbjct: 1002 STRLSDIAEETDSFGEAQRNSSRGKCAKRGKSRVGQTQRVQRSRRGKKAAKIGGDESDEN 1061

Query: 1034 REMDDE-----------------ENLETRQTNVVEDLESLDRGKALQQEVVKDFGKEKQT 1076
             E+D                   EN ETR+ ++ +  ES  R   +  E      +  +T
Sbjct: 1062 DELDGNNNVSADAEEGNAAGRSVENEETREPDIAKYTESQQRDNTVAVEEALQDSRNAKT 1121

Query: 1077 VRAPDIEMRERYHSKDSETTDKQQVDAVQAMLLDMIPSLGMKNEKTTNPIPKE------- 1129
                +++M+E+    +         D +QAML+ M P    K  +T+N    E       
Sbjct: 1122 ----EMDMKEKLQIHE---------DPLQAMLMKMFPIPSQKTTETSNRTTGEYRKANVS 1168

Query: 1130 ---------------ESSSAEPSAEP------TKKKKVSYKDIASKLLKDW 1159
                           +++S    AE        KKKKVSY+D+A +LLKDW
Sbjct: 1169 GECESSEKRKLDAETDNTSVNAGAESDVVPPLVKKKKVSYRDVAGELLKDW 1219

Efficiently joins single-strand breaks in a double-stranded polydeoxynucleotide in an ATP-dependent reaction. Involved in DNA nonhomologous end joining (NHEJ) required for double-strand break repair. May be involved for T-DNA integration even if not absolutely required. Seems to be dispensable under normal growth conditions.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 5EC: .EC: 1EC: .EC: 1

>sp\|Q7X7E9\|DNLI4_ORYSJ Putative DNA ligase 4 OS=Oryza sativa subsp. japonica GN=LIG4 PE=2 SV=2	Back alignment and function description

>sp\|Q5R6L3\|DNLI4_PONAB DNA ligase 4 OS=Pongo abelii GN=DNL4 PE=2 SV=1	Back alignment and function description

>sp\|P49917\|DNLI4_HUMAN DNA ligase 4 OS=Homo sapiens GN=LIG4 PE=1 SV=2	Back alignment and function description

>sp\|Q8BTF7\|DNLI4_MOUSE DNA ligase 4 OS=Mus musculus GN=Lig4 PE=2 SV=2	Back alignment and function description

>sp\|Q90YB1\|DNLI4_CHICK DNA ligase 4 OS=Gallus gallus GN=LIG4 PE=2 SV=2	Back alignment and function description

>sp\|Q54CR9\|DNLI4_DICDI DNA ligase 4 OS=Dictyostelium discoideum GN=lig4 PE=3 SV=1	Back alignment and function description

>sp\|Q2U6A1\|DNLI4_ASPOR DNA ligase 4 OS=Aspergillus oryzae (strain ATCC 42149 / RIB 40) GN=lig4 PE=3 SV=1	Back alignment and function description

>sp\|Q6C8A3\|DNLI4_YARLI DNA ligase 4 OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=LIG4 PE=3 SV=1	Back alignment and function description

>sp\|Q7Z7W5\|DNLI4_COPCI DNA ligase 4 OS=Coprinopsis cinerea GN=LIG4 PE=2 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
Query		1159
225445943		1162	PREDICTED: DNA ligase 4-like [Vitis vini	0.989	0.987	0.726	0.0
297735473		1163	unnamed protein product [Vitis vinifera]	0.989	0.986	0.725	0.0
224144326		1242	predicted protein [Populus trichocarpa]	0.989	0.923	0.669	0.0
356556242		1171	PREDICTED: DNA ligase 4-like [Glycine ma	0.988	0.978	0.677	0.0
112732548		1319	DNA ligase IV [Populus nigra]	0.885	0.777	0.741	0.0
357449599		1244	DNA ligase [Medicago truncatula] gi\|3554	0.987	0.920	0.640	0.0
297796605		1221	ATLIG4 [Arabidopsis lyrata subsp. lyrata	0.977	0.927	0.627	0.0
30696835		1219	DNA ligase 4 [Arabidopsis thaliana] gi\|7	0.968	0.921	0.614	0.0
449463583		1214	PREDICTED: DNA ligase 4-like [Cucumis sa	0.989	0.944	0.625	0.0
8843818		1184	unnamed protein product [Arabidopsis tha	0.938	0.918	0.592	0.0

>gi\|225445943\|ref\|XP_002263967.1\| PREDICTED: DNA ligase 4-like [Vitis vinifera]	Back alignment and taxonomy information

 Score = 1696 bits (4393), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 849/1168 (72%), Positives = 977/1168 (83%), Gaps = 21/1168 (1%)

Query: 5    EETEVIVLVSLFNWIQKTKPAAKKRSKFRKFLDTYCDSVDYFSALRLILPSLDRERGSYG 64
            EET+  VL SLF WIQ+++ +AKKRSKFR FLDT+C +   FSA+RLILP+LDRERGSYG
Sbjct: 3    EETKFSVLCSLFTWIQRSRTSAKKRSKFRIFLDTFCINGHQFSAIRLILPNLDRERGSYG 62

Query: 65   LKESVLANCLIDALGMSKDSADAVRLINWRKGGA--APNAGNFPMVAAEVLQRRQGMISG 122
            LKESVLA CLIDALGMS++S DA+RLINWRKGGA    NAGNF MVAAEVLQRRQGM SG
Sbjct: 63   LKESVLATCLIDALGMSRESEDALRLINWRKGGAKTGANAGNFAMVAAEVLQRRQGMTSG 122

Query: 123  GLTIKELNDLLDRLASSENRAEKISVLSTLIKKTNAQEMKWIIMIILKDLKLGISEKSIF 182
            GLTIKELNDLLD LASSENR EK SVLSTLIKKTNAQEMKWI+MIILKDLKLGISEKSIF
Sbjct: 123  GLTIKELNDLLDCLASSENRTEKTSVLSTLIKKTNAQEMKWIVMIILKDLKLGISEKSIF 182

Query: 183  HEFHPDAEDLFNVTCDLKLVCEKLKDRNQRHKRQDIEVGKAVRPQLAMRIGDAHAAWRKL 242
            HEFHPDAEDLFNVTCDLKLVCEKLKDR+QRHKRQDIEVGKAVRPQLAMR+ DA AAW+KL
Sbjct: 183  HEFHPDAEDLFNVTCDLKLVCEKLKDRSQRHKRQDIEVGKAVRPQLAMRVADATAAWKKL 242

Query: 243  HGKEVVIECKFDGDRIQIHKNGSEIHYFSRSFLDHSEYGHAMSKIIEQNVLVDRCILDGE 302
            HGKEVV+ECKFDGDRIQIHKNG EIH+FSR+FLDH EY +AMS I+ QN+LVDRCILDGE
Sbjct: 243  HGKEVVVECKFDGDRIQIHKNGEEIHFFSRNFLDHPEYKYAMSNIVAQNLLVDRCILDGE 302

Query: 303  MLVWDTSLNRFAEFGSNQEIAKAARDGLSSDRQLCYFAFDVLYVGDTSVIHQSLKERHEL 362
            MLVWD SLNRFAEFGSNQEIAKAA++GL SDRQLCY AFD+LYVGDTSVIHQ+LKERHEL
Sbjct: 303  MLVWDISLNRFAEFGSNQEIAKAAKEGLDSDRQLCYVAFDILYVGDTSVIHQTLKERHEL 362

Query: 363  LQKVVKPSKGRLETLVPDHGLNSHVRPQGEPCWSLVAHNVDEVEKFFKETIENRDEGIVL 422
            LQKVVKP KGR E LVP  GLN+H RP GEPCWSL+A++VD+VE+FFK+T+ENRDEGIVL
Sbjct: 363  LQKVVKPLKGRFEILVPSGGLNTH-RPSGEPCWSLIAYDVDDVERFFKKTVENRDEGIVL 421

Query: 423  KDLGSKWEPGDRSGKWLKLKPEYIRAGSDLDVLIIGGYYGSGRRGGEVAQFLVALAERPA 482
            KDLGSKWEP DRSGKWLKLKPEY+ AGSDLDVLIIGGYYGSGRRGGEVAQFLV LA+   
Sbjct: 422  KDLGSKWEPSDRSGKWLKLKPEYVHAGSDLDVLIIGGYYGSGRRGGEVAQFLVGLADHSG 481

Query: 483  PDTYPRRFISFCRVGTGLSDEELDAVVTKLKPYFRKYEYPKRAPPSFYQVTNNSKERPDV 542
            PDTYPRRFISFCRVGTGLSD+ELDAVVTKLKPYFRK EYPK+APPSFYQVTNNSKERPD+
Sbjct: 482  PDTYPRRFISFCRVGTGLSDDELDAVVTKLKPYFRKNEYPKKAPPSFYQVTNNSKERPDI 541

Query: 543  WIESPEKSIILSITSDIRTIRSEVFSAPYSLRFPRIDRVRYDKPWHDCLDVQSFVELVHS 602
            WI+SPEKSIILSITSDIRTIRSEVF+APYSLRFPRID VRYDKPWH+CLDVQSF+ELVHS
Sbjct: 542  WIDSPEKSIILSITSDIRTIRSEVFAAPYSLRFPRIDCVRYDKPWHECLDVQSFMELVHS 601

Query: 603  SNGTTQKGKEYGGLQDDKPKQFRSSRKGEKKNVSIVPSHFLQTDVSDIKGETSIFSDMVF 662
            SNGTTQ+G +YG +QD KPK+ +SS+KGE+K   +VPSHF+QTDV+++KGET IFS+M+F
Sbjct: 602  SNGTTQRGADYGRMQDSKPKRMKSSKKGEQKTAHVVPSHFMQTDVTNVKGETLIFSNMMF 661

Query: 663  YFVNVPPAYSLDSLHKMVVENGGTFSMNLNNSVTHCVAADNKGLKYEAAKRRGDVIHYSW 722
            YFVN PP +SLDSLHK+VVENGGTFSMNLNNSVTHCVAA +KG+KY+AAK RGD+IH SW
Sbjct: 662  YFVNTPPTHSLDSLHKLVVENGGTFSMNLNNSVTHCVAAQSKGIKYQAAKLRGDIIHCSW 721

Query: 723  VLDCCSQKKLLQLQPKYYLHLSDSSKKKLQEEVDEFSDLYFWDLDLADIKQLLSNVDRSE 782
            V DCCSQKKLL LQPKY+L LS+ SKKKLQEE+D+FSD Y+ DLD++DIKQLLSNVDRS+
Sbjct: 722  VFDCCSQKKLLPLQPKYFLFLSEHSKKKLQEEIDKFSDSYYQDLDISDIKQLLSNVDRSD 781

Query: 783  DPKTIDYYKKKYCPQDKWSCFHGCCIYFYHSTEPLSPDWEVLLGLALRRLKLEISFHGGK 842
            + KTIDYYK KYCP++KWS FH CCI F+ S +  + DWE+L  LALRR+KLE+S  GGK
Sbjct: 782  NSKTIDYYKNKYCPKEKWSRFHDCCICFHSSIQSSNSDWELLSKLALRRMKLEVSMGGGK 841

Query: 843  VCNNLANATHVVVLSVLGYDVNFNSLTESFTAREKHLLWNKKLHVVRSQWLEDCLAKEQK 902
            V NNL+ ATH+VV SV G+D++F+ + ESF+  EKHLL NKKLHVV  QWLE CL + ++
Sbjct: 842  VGNNLSQATHLVVFSVPGFDLDFSDIMESFSPAEKHLLCNKKLHVVGYQWLEGCLEEGRR 901

Query: 903  SEEYEYSLKPTGMQESYLELCEEDLDMEEPSSTLETSDKQNVSSFPDGDGKQRGTRGVSP 962
             +E +YSLKP G++ES    C+ D+D+E P S L++ + QN+ SFPD +GKQ   RG +P
Sbjct: 902  LQEQKYSLKPEGLEESNFGECKHDIDVEAP-SVLDSVENQNLVSFPDKEGKQ--GRGKAP 958

Query: 963  -------ASPKREGKRKRGRPAGGSAKKRKSTVNLARRKRPHVRNKPSKIYQNESDESNA 1015
                   ASPKR+ KRKRGRPAG S KK K+  + ARR RP +  KP KIY+NESD   A
Sbjct: 959  PESISILASPKRDEKRKRGRPAGPSTKKGKAGFSQARRTRPRI-GKPPKIYENESD---A 1014

Query: 1016 SDETEKKEE--INREENHEDREMDDEENLETRQTNVVEDLESLDRGKALQQEVVKDFGKE 1073
            SD  EK EE       NH    ++ +E  E ++T +VED ES  RGK  ++EV  D  +E
Sbjct: 1015 SDSGEKMEEEGTKMGGNHAIHGVECKECPEIQETEIVEDSESSQRGKTEEKEVALDNVRE 1074

Query: 1074 KQTVRAPDIEMRERYHSKDSETTDKQQ--VDAVQAMLLDMIPSLGMKNEKTTNPIPKEES 1131
            K   RA DIE+       +S+ T+K +  VD VQAMLLDMIPSLG+K  ++TNPI  +E 
Sbjct: 1075 KWLDRAQDIELDSENKVDNSKKTEKLEVMVDPVQAMLLDMIPSLGVKKAESTNPIIDDEK 1134

Query: 1132 SSAEPSAEPTKKKKVSYKDIASKLLKDW 1159
               E  AEP KKKKVSYKD+A  LLKDW
Sbjct: 1135 PPVEQGAEPVKKKKVSYKDVAGALLKDW 1162

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|297735473\|emb\|CBI17913.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|224144326\|ref\|XP_002325262.1\| predicted protein [Populus trichocarpa] gi\|222866696\|gb\|EEF03827.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|356556242\|ref\|XP_003546435.1\| PREDICTED: DNA ligase 4-like [Glycine max]	Back alignment and taxonomy information

>gi\|112732548\|dbj\|BAF03051.1\| DNA ligase IV [Populus nigra]	Back alignment and taxonomy information

>gi\|357449599\|ref\|XP_003595076.1\| DNA ligase [Medicago truncatula] gi\|355484124\|gb\|AES65327.1\| DNA ligase [Medicago truncatula]	Back alignment and taxonomy information

>gi\|297796605\|ref\|XP_002866187.1\| ATLIG4 [Arabidopsis lyrata subsp. lyrata] gi\|297312022\|gb\|EFH42446.1\| ATLIG4 [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|30696835\|ref\|NP_568851.2\| DNA ligase 4 [Arabidopsis thaliana] gi\|75174554\|sp\|Q9LL84.1\|DNLI4_ARATH RecName: Full=DNA ligase 4; AltName: Full=DNA ligase IV; AltName: Full=Polydeoxyribonucleotide synthase [ATP] 4 gi\|9651815\|gb\|AAF91284.1\|AF233527_1 DNA ligase IV [Arabidopsis thaliana] gi\|332009474\|gb\|AED96857.1\| DNA ligase 4 [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|449463583\|ref\|XP_004149513.1\| PREDICTED: DNA ligase 4-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|8843818\|dbj\|BAA97366.1\| unnamed protein product [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
Query		1159
TAIR\|locus:2175544		1219	ATLIG4 [Arabidopsis thaliana (	0.787	0.748	0.733	0.0
UNIPROTKB\|Q5R6L3		911	DNL4 "DNA ligase 4" [Pongo abe	0.716	0.911	0.308	5.8e-98
UNIPROTKB\|P49917		911	LIG4 "DNA ligase 4" [Homo sapi	0.716	0.911	0.306	9.4e-98
UNIPROTKB\|E2R0G7		911	LIG4 "DNA ligase" [Canis lupus	0.691	0.880	0.311	9.7e-96
DICTYBASE\|DDB_G0292760		1088	lig4 "BRCT domain-containing p	0.467	0.498	0.290	6.3e-94
UNIPROTKB\|F1MB07		911	LIG4 "DNA ligase" [Bos taurus	0.694	0.883	0.303	9e-93
RGD\|1304639		911	Lig4 "ligase IV, DNA, ATP-depe	0.698	0.889	0.296	4.5e-91
UNIPROTKB\|F1RLP1		910	LIG4 "DNA ligase" [Sus scrofa	0.510	0.650	0.343	4.3e-86
UNIPROTKB\|Q23RI5		1026	TTHERM_00387050 "DNA ligase" [	0.560	0.633	0.300	1.1e-84
ASPGD\|ASPL0000057134		1009	AN0097 [Emericella nidulans (t	0.615	0.706	0.283	1.9e-81

TAIR\|locus:2175544 ATLIG4 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 3551 (1255.1 bits), Expect = 0., Sum P(2) = 0.
 Identities = 673/918 (73%), Positives = 781/918 (85%)

Query:     4 TEETEVIVLVSLFNWIQKTKPAAKKRSKFRKFLDTYCDSVDYFSALRLILPSLDRERGSY 63
             TEE +  VLVSLFNWIQK+K +++KRSKFRKFLDTYC   DYF A+RLI+PSLDRERGSY
Sbjct:     2 TEEIKFSVLVSLFNWIQKSKTSSQKRSKFRKFLDTYCKPSDYFVAVRLIIPSLDRERGSY 61

Query:    64 GLKESVLANCLIDALGMSKDSADAVRLINWRKGGAAP---NAGNFPMVAAEVLQRRQGMI 120
             GLKESVLA CLIDALG+S+D+ DAVRL+NWRKGG A    NAGNF ++AAEVLQRRQGM 
Sbjct:    62 GLKESVLATCLIDALGISRDAPDAVRLLNWRKGGTAKAGANAGNFSLIAAEVLQRRQGMA 121

Query:   121 SGGLTIKELNDLLDRLASSENRAEKISVLSTLIKKTNAQEMKWIIMIILKDLKLGISEKS 180
             SGGLTIKELNDLLDRLASSENRAEK  VLSTLI+KTNAQEMKW+I IILKDLKLG+SEKS
Sbjct:   122 SGGLTIKELNDLLDRLASSENRAEKTLVLSTLIQKTNAQEMKWVIRIILKDLKLGMSEKS 181

Query:   181 IFHEFHPDAEDLFNVTCDLKLVCEKLKDRNQRHKRQDIEVGKAVRPQLAMRIGDAHAAWR 240
             IF EFHPDAEDLFNVTCDLKLVCEKL+DR+QRHKRQDIEVGKAVRPQLAMRIGD +AAW+
Sbjct:   182 IFQEFHPDAEDLFNVTCDLKLVCEKLRDRHQRHKRQDIEVGKAVRPQLAMRIGDVNAAWK 241

Query:   241 KLHGKEVVIECKFDGDRIQIHKNGSEIHYFSRSFLDHSEYGHAMSKIIEQNVLVDRCILD 300
             KLHGK+VV ECKFDGDRIQIHKNG++IHYFSR+FLDHSEY HAMS +I QN+LVD+CILD
Sbjct:   242 KLHGKDVVAECKFDGDRIQIHKNGTDIHYFSRNFLDHSEYAHAMSDLIVQNILVDKCILD 301

Query:   301 GEMLVWDTSLNRFAEFGSNQEIAKAARDGLSSDRQLCYFAFDVLYVGDTSVIHQSLKERH 360
             GEMLVWDTSLNRFAEFGSNQEIAKAAR+GL S +QLCY AFDVLYVGDTSVIHQSLKERH
Sbjct:   302 GEMLVWDTSLNRFAEFGSNQEIAKAAREGLDSHKQLCYVAFDVLYVGDTSVIHQSLKERH 361

Query:   361 ELLQKVVKPSKGRLETLVPDHGLNSHVRPQGEPCWSLVAHNVDEVEKFFKETIENRDEGI 420
             ELL+KVVKP KGRLE LVP+ GLN H RP GEP WS+V H   +VE+FFKET+ENRDEGI
Sbjct:   362 ELLKKVVKPLKGRLEVLVPEGGLNVH-RPSGEPSWSIVVHAAADVERFFKETVENRDEGI 420

Query:   421 VLKDLGSKWEPGDRSGKWLKLKPEYIRAGSDLDVLIIXXXXXXXXXXXEVAQFLVALAER 480
             VLKDL SKWEPGDRSGKW+KLKPEYIRAG+DLDVLII           EVAQFLVALA+R
Sbjct:   421 VLKDLESKWEPGDRSGKWMKLKPEYIRAGADLDVLIIGGYYGSGRRGGEVAQFLVALADR 480

Query:   481 PAPDTYPRRFISFCRVGTGLSDEELDAVVTKLKPYFRKYEYPKRAPPSFYQVTNNSKERP 540
                + YPRRF+SFCRVGTGLSD+EL+ VV+KLKPYFRK E+PK+APPSFYQVTN+SKERP
Sbjct:   481 AEANVYPRRFMSFCRVGTGLSDDELNTVVSKLKPYFRKNEHPKKAPPSFYQVTNHSKERP 540

Query:   541 DVWIESPEKSIILSITSDIRTIRSEVFSAPYSLRFPRIDRVRYDKPWHDCLDVQSFVELV 600
             DVWI+SPEKSIILSITSDIRTIRSEVF APYSLRFPRID+VRYDKPWH+CLDVQ+FVELV
Sbjct:   541 DVWIDSPEKSIILSITSDIRTIRSEVFVAPYSLRFPRIDKVRYDKPWHECLDVQAFVELV 600

Query:   601 HSSNGTTQKGKEYGGLQDDKPKQFRSSRKGEKKNVSIVPSHFLQTDVSDIKGETSIFSDM 660
             +SSNGTTQK KE    QD+ PK  +SS++GEKKNVS+VPS F+QTDVSDIKG+TSIFS+M
Sbjct:   601 NSSNGTTQKQKESESTQDN-PKVNKSSKRGEKKNVSLVPSQFIQTDVSDIKGKTSIFSNM 659

Query:   661 VFYFVNVPPAYSLDSLHKMVVENGGTFSMNLNNSVTHCVAADNKGLKYEAAKRRGDVIHY 720
             +FYFVNVP ++SL++ HKMVVENGG FSMNLNNSVTHC+AA++ G+KY+AAKR+ DVIH+
Sbjct:   660 IFYFVNVPRSHSLETFHKMVVENGGKFSMNLNNSVTHCIAAESSGIKYQAAKRQRDVIHF 719

Query:   721 SWVLDCCSXXXXXXXXXXYYLHLSDSSKKKLQEEVDEFSDLYFWDLDLADIKQLLSNVDR 780
             SWVLDCCS          Y+LHL+D+S+ KLQ+++DEFSD Y+WDLDL  +KQ+LSN  +
Sbjct:   720 SWVLDCCSRNKMLPLLPKYFLHLTDASRTKLQDDIDEFSDSYYWDLDLEGLKQVLSNAKQ 779

Query:   781 SEDPKTIDYYKKKYCPQDKWSCFHGCCIYFYHSTEPLSPDWEVXXXXXXXXXXXEISFHG 840
             SED K+IDYYKKK CP+ +WSC   CC+YFY  ++ LS + E            E+   G
Sbjct:   780 SEDSKSIDYYKKKLCPEKRWSCLLSCCVYFYPYSQTLSTEEEALLGIMAKRLMLEVLMAG 839

Query:   841 GKVCNNLANATHVVVLSVLGYDVNFNSLTESFTAREKHLLWNKKLHVVRSQWLEDCLAKE 900
             GKV NNLA+A+H+VVL++    ++F  +++SF+  EK LL  K+LHVV S WLE+ L +E
Sbjct:   840 GKVSNNLAHASHLVVLAMAEEPLDFTLVSKSFSEMEKRLLLKKRLHVVSSHWLEESLQRE 899

Query:   901 QKSEEYEYSLKPTGMQES 918
             +K  E  Y+L+P  M+ES
Sbjct:   900 EKLCEDVYTLRPKYMEES 917

GO:0003677 "DNA binding" evidence=IEA

GO:0003909 "DNA ligase activity" evidence=IEA

GO:0003910 "DNA ligase (ATP) activity" evidence=IEA;IDA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006260 "DNA replication" evidence=IEA

GO:0006266 "DNA ligation" evidence=IBA

GO:0006281 "DNA repair" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0032807 "DNA ligase IV complex" evidence=IBA

GO:0051103 "DNA ligation involved in DNA repair" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0006974 "response to DNA damage stimulus" evidence=IMP

GO:0010165 "response to X-ray" evidence=IMP

GO:0015074 "DNA integration" evidence=IMP

GO:0000723 "telomere maintenance" evidence=IMP

GO:0006302 "double-strand break repair" evidence=IMP

GO:0009506 "plasmodesma" evidence=IDA

GO:0048046 "apoplast" evidence=IDA

UNIPROTKB\|Q5R6L3 DNL4 "DNA ligase 4" [Pongo abelii (taxid:9601)]	Back alignment and assigned GO terms

UNIPROTKB\|P49917 LIG4 "DNA ligase 4" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|E2R0G7 LIG4 "DNA ligase" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

DICTYBASE\|DDB_G0292760 lig4 "BRCT domain-containing protein" [Dictyostelium discoideum (taxid:44689)]	Back alignment and assigned GO terms

UNIPROTKB\|F1MB07 LIG4 "DNA ligase" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

RGD\|1304639 Lig4 "ligase IV, DNA, ATP-dependent" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

UNIPROTKB\|F1RLP1 LIG4 "DNA ligase" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

UNIPROTKB\|Q23RI5 TTHERM_00387050 "DNA ligase" [Tetrahymena thermophila SB210 (taxid:312017)]	Back alignment and assigned GO terms

ASPGD\|ASPL0000057134 AN0097 [Emericella nidulans (taxid:162425)]	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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9LL84	DNLI4_ARATH	6, ., 5, ., 1, ., 1	0.6147	0.9689	0.9212	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
4th Layer	6.5.1.1	0.991
3rd Layer	6.5.1	0.976

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
Query		1159
TIGR00574		514	TIGR00574, dnl1, DNA ligase I, ATP-dependent (dnl1	1e-100
cd07903		225	cd07903, Adenylation_DNA_ligase_IV, Adenylation do	5e-79
PRK01109		590	PRK01109, PRK01109, ATP-dependent DNA ligase; Prov	6e-60
cd07968		140	cd07968, OBF_DNA_ligase_IV, The Oligonucleotide/ol	1e-54
COG1793		444	COG1793, CDC9, ATP-dependent DNA ligase [DNA repli	9e-52
pfam01068		195	pfam01068, DNA_ligase_A_M, ATP dependent DNA ligas	5e-40
cd07901		207	cd07901, Adenylation_DNA_ligase_Arch_LigB, Adenyla	1e-38
cd07898		201	cd07898, Adenylation_DNA_ligase, Adenylation domai	1e-35
cd07900		219	cd07900, Adenylation_DNA_ligase_I_Euk, Adenylation	2e-35
pfam04675		177	pfam04675, DNA_ligase_A_N, DNA ligase N terminus	1e-32
PRK03180		508	PRK03180, ligB, ATP-dependent DNA ligase; Reviewed	8e-32
PLN03113		744	PLN03113, PLN03113, DNA ligase 1; Provisional	6e-30
cd07906		190	cd07906, Adenylation_DNA_ligase_LigD_LigC, Adenyla	2e-28
cd07902		213	cd07902, Adenylation_DNA_ligase_III, Adenylation d	7e-26
cd07893		129	cd07893, OBF_DNA_ligase, The Oligonucleotide/oligo	2e-25
TIGR02779		298	TIGR02779, NHEJ_ligase_lig, DNA polymerase LigD, l	3e-24
PRK09632		764	PRK09632, PRK09632, ATP-dependent DNA ligase; Revi	1e-19
cd08039		235	cd08039, Adenylation_DNA_ligase_Fungal, Adenylatio	6e-19
cd07969		144	cd07969, OBF_DNA_ligase_I, The Oligonucleotide/oli	6e-19
TIGR02776		552	TIGR02776, NHEJ_ligase_prk, DNA ligase D	4e-15
PRK05972		860	PRK05972, ligD, ATP-dependent DNA ligase; Reviewed	3e-14
pfam04679		95	pfam04679, DNA_ligase_A_C, ATP dependent DNA ligas	1e-13
cd07972		122	cd07972, OBF_DNA_ligase_Arch_LigB, The Oligonucleo	2e-13
cd07967		139	cd07967, OBF_DNA_ligase_III, The Oligonucleotide/o	2e-13
cd07905		194	cd07905, Adenylation_DNA_ligase_LigC, Adenylation	7e-12
cd06846		182	cd06846, Adenylation_DNA_ligase_like, Adenylation	2e-11
pfam00533		77	pfam00533, BRCT, BRCA1 C Terminus (BRCT) domain	6e-11
PRK07636		275	PRK07636, ligB, ATP-dependent DNA ligase; Reviewed	7e-11
smart00292		78	smart00292, BRCT, breast cancer carboxy-terminal d	1e-10
PRK09633		610	PRK09633, ligD, ATP-dependent DNA ligase; Reviewed	7e-10
TIGR04120		526	TIGR04120, DNA_lig_bact, DNA ligase, ATP-dependent	1e-09
PHA02587		488	PHA02587, 30, DNA ligase; Provisional	1e-09
pfam12738		63	pfam12738, PTCB-BRCT, twin BRCT domain	2e-09
cd00027		72	cd00027, BRCT, Breast Cancer Suppressor Protein (B	7e-09
cd07897		207	cd07897, Adenylation_DNA_ligase_Bac1, Adenylation	8e-09
PRK09125		282	PRK09125, PRK09125, DNA ligase; Provisional	8e-09
PRK09247		539	PRK09247, PRK09247, ATP-dependent DNA ligase; Vali	4e-08
cd07896		174	cd07896, Adenylation_kDNA_ligase_like, Adenylation	1e-07
cd08040		108	cd08040, OBF_DNA_ligase_family, The Oligonucleotid	3e-06
cd07971		115	cd07971, OBF_DNA_ligase_LigD, The Oligonucleotide/	3e-04
pfam00533		77	pfam00533, BRCT, BRCA1 C Terminus (BRCT) domain	8e-04
pfam04675		177	pfam04675, DNA_ligase_A_N, DNA ligase N terminus	0.004

>gnl\|CDD\|233029 TIGR00574, dnl1, DNA ligase I, ATP-dependent (dnl1)	Back alignment and domain information

 Score =  325 bits (836), Expect = e-100
 Identities = 175/558 (31%), Positives = 267/558 (47%), Gaps = 66/558 (11%)

Query: 63  YGLKESVLANCLIDALGMSKDSADAVRLINWRKGGAAPNAGNFPMVAAEVLQRRQGMIS- 121
           YG+ E +L   +   LG+ KD  +   L +   G              E L  +Q   S 
Sbjct: 2   YGIGEKLLIKAISSILGIPKDEIEEKVLEDGDLG-----------EVIEGLFSKQKQTSF 50

Query: 122 --GGLTIKELNDLLDRLASSE---NRAEKISVLSTLIKKTNAQEMKWIIMIILKDLKLGI 176
               LT+KE+ ++L  +A      ++ +KI +L +L+K+    E K++I +IL DL++GI
Sbjct: 51  FPAPLTVKEVYEVLKFIARLSGEGSQDKKIKLLKSLLKRATPLEAKYLIRLILGDLRIGI 110

Query: 177 SEKSIFHEFH-------PDAEDLFNVTCDLKLVCEKLKDRNQRHKRQD--IEVGKAVRPQ 227
           +EK+I            PD E  FN+T DL  V + L +   R   +D  I++G   +P 
Sbjct: 111 AEKTILDALAKAFLLSPPDVERAFNLTNDLGKVAKILLEEGLRGLDKDLSIQLGIPFKPM 170

Query: 228 LAMRIGDAHAAWRKLHGKEVVIECKFDGDRIQIHKNGSEIHYFSRSFLDHSE-YGHAMSK 286
           LA R      A +K       +E K+DG+R+Q+HK+G +   FSR   +++  Y    ++
Sbjct: 171 LAERAKSIEEALKKKGNG-FYVEYKYDGERVQVHKDGDKFKIFSRRLENYTYAYPEIFTE 229

Query: 287 -IIEQNVLVDRCILDGEMLVWDTSLNRFAEFGSNQEIA-KAARDGLSSDRQLCYFAFDVL 344
            I E    +  CILDGEM+  D    +   F +      K     +     +C F FD+L
Sbjct: 230 FIKEAFPGIKSCILDGEMVAIDPETGKPLPFQTLLRRKRKYDIKAMEQKVPVCLFVFDIL 289

Query: 345 YVGDTSVIHQSLKERHELLQKVVKPSKGRLETLVPDHGLNSHVRPQGEPCWSLVAHNVDE 404
           Y+   S+I + L ER E+L+ ++KP   R+E +                    +  NV+E
Sbjct: 290 YLNGESLIDEPLIERREILESILKPIPNRIE-IAE----------------MKIVSNVEE 332

Query: 405 VEKFFKETIENRDEGIVLKDLGSKWEPGDRSGKWLKLKPEYIRA-GSDLDVLIIGGYYGS 463
           +EKF  E I    EG++LKDL S +EPG R   WLK+KPEY+   G  LD+++IG YYG 
Sbjct: 333 LEKFLNEAISEGCEGLMLKDLKSIYEPGKRGWLWLKVKPEYLEGMGDTLDLVVIGAYYGK 392

Query: 464 GRRGGEVAQFLVALAERPAPDTYPRRFISFCRVGTGLSDEELDAVVTKLKPYFRKYEYPK 523
           G RGG    FL+A       D     F +  +VGTG +D +L  +  KL P     + P 
Sbjct: 393 GSRGGMYGSFLLACY-----DPESEEFKTITKVGTGFTDADLQELGKKLPPL--WIDPPG 445

Query: 524 RAPPSFYQVTNNSKERPDVWIESPEKSIILSIT-SDIRTIRSEVFSAPYSLRFPRIDRVR 582
              PS         + PD+W   P+ +I+  +T ++I T      +   SLRFPR  R+R
Sbjct: 446 SRVPSI------LPDEPDIW---PDPAIVWEVTGAEI-TKSPAYKANGISLRFPRFSRIR 495

Query: 583 YDKPWHDCLDVQSFVELV 600
            DK   D   ++   EL 
Sbjct: 496 DDKGPEDATTIEQIKELY 513

All proteins in this family with known functions are ATP-dependent DNA ligases. Functions include DNA repair, DNA replication, and DNA recombination (or any process requiring ligation of two single-stranded DNA sections). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 514

>gnl\|CDD\|185713 cd07903, Adenylation_DNA_ligase_IV, Adenylation domain of DNA Ligase IV	Back alignment and domain information

>gnl\|CDD\|234900 PRK01109, PRK01109, ATP-dependent DNA ligase; Provisional	Back alignment and domain information

>gnl\|CDD\|153437 cd07968, OBF_DNA_ligase_IV, The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase IV is a DNA-binding module that is part of the catalytic core unit	Back alignment and domain information

>gnl\|CDD\|224706 COG1793, CDC9, ATP-dependent DNA ligase [DNA replication, recombination, and repair]	Back alignment and domain information

>gnl\|CDD\|216280 pfam01068, DNA_ligase_A_M, ATP dependent DNA ligase domain	Back alignment and domain information

>gnl\|CDD\|185711 cd07901, Adenylation_DNA_ligase_Arch_LigB, Adenylation domain of archaeal and bacterial LigB-like DNA ligases	Back alignment and domain information

>gnl\|CDD\|185709 cd07898, Adenylation_DNA_ligase, Adenylation domain of ATP-dependent DNA Ligases	Back alignment and domain information

>gnl\|CDD\|185710 cd07900, Adenylation_DNA_ligase_I_Euk, Adenylation domain of eukaryotic DNA Ligase I	Back alignment and domain information

>gnl\|CDD\|218206 pfam04675, DNA_ligase_A_N, DNA ligase N terminus	Back alignment and domain information

>gnl\|CDD\|235108 PRK03180, ligB, ATP-dependent DNA ligase; Reviewed	Back alignment and domain information

>gnl\|CDD\|215584 PLN03113, PLN03113, DNA ligase 1; Provisional	Back alignment and domain information

>gnl\|CDD\|185715 cd07906, Adenylation_DNA_ligase_LigD_LigC, Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases	Back alignment and domain information

>gnl\|CDD\|185712 cd07902, Adenylation_DNA_ligase_III, Adenylation domain of DNA Ligase III	Back alignment and domain information

>gnl\|CDD\|153435 cd07893, OBF_DNA_ligase, The Oligonucleotide/oligosaccharide binding (OB)-fold domain is a DNA-binding module that is part of the catalytic core unit of ATP dependent DNA ligases	Back alignment and domain information

>gnl\|CDD\|234009 TIGR02779, NHEJ_ligase_lig, DNA polymerase LigD, ligase domain	Back alignment and domain information

>gnl\|CDD\|236599 PRK09632, PRK09632, ATP-dependent DNA ligase; Reviewed	Back alignment and domain information

>gnl\|CDD\|185716 cd08039, Adenylation_DNA_ligase_Fungal, Adenylation domain of uncharacterized fungal ATP-dependent DNA ligase-like proteins	Back alignment and domain information

>gnl\|CDD\|153438 cd07969, OBF_DNA_ligase_I, The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase I is a DNA-binding module that is part of the catalytic core unit	Back alignment and domain information

>gnl\|CDD\|234007 TIGR02776, NHEJ_ligase_prk, DNA ligase D	Back alignment and domain information

>gnl\|CDD\|235658 PRK05972, ligD, ATP-dependent DNA ligase; Reviewed	Back alignment and domain information

>gnl\|CDD\|218210 pfam04679, DNA_ligase_A_C, ATP dependent DNA ligase C terminal region	Back alignment and domain information

>gnl\|CDD\|153441 cd07972, OBF_DNA_ligase_Arch_LigB, The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit	Back alignment and domain information

>gnl\|CDD\|153436 cd07967, OBF_DNA_ligase_III, The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase III is a DNA-binding module that is part of the catalytic core unit	Back alignment and domain information

>gnl\|CDD\|185714 cd07905, Adenylation_DNA_ligase_LigC, Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases	Back alignment and domain information

>gnl\|CDD\|185704 cd06846, Adenylation_DNA_ligase_like, Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases	Back alignment and domain information

>gnl\|CDD\|215978 pfam00533, BRCT, BRCA1 C Terminus (BRCT) domain	Back alignment and domain information

>gnl\|CDD\|236070 PRK07636, ligB, ATP-dependent DNA ligase; Reviewed	Back alignment and domain information

>gnl\|CDD\|214602 smart00292, BRCT, breast cancer carboxy-terminal domain	Back alignment and domain information

>gnl\|CDD\|182006 PRK09633, ligD, ATP-dependent DNA ligase; Reviewed	Back alignment and domain information

>gnl\|CDD\|234477 TIGR04120, DNA_lig_bact, DNA ligase, ATP-dependent, PP_1105 family	Back alignment and domain information

>gnl\|CDD\|222893 PHA02587, 30, DNA ligase; Provisional	Back alignment and domain information

>gnl\|CDD\|193214 pfam12738, PTCB-BRCT, twin BRCT domain	Back alignment and domain information

>gnl\|CDD\|237994 cd00027, BRCT, Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain	Back alignment and domain information

>gnl\|CDD\|185708 cd07897, Adenylation_DNA_ligase_Bac1, Adenylation domain of putative bacterial ATP-dependent DNA ligases	Back alignment and domain information

>gnl\|CDD\|181662 PRK09125, PRK09125, DNA ligase; Provisional	Back alignment and domain information

>gnl\|CDD\|236428 PRK09247, PRK09247, ATP-dependent DNA ligase; Validated	Back alignment and domain information

>gnl\|CDD\|185707 cd07896, Adenylation_kDNA_ligase_like, Adenylation domain of kDNA ligases and similar proteins	Back alignment and domain information

>gnl\|CDD\|153442 cd08040, OBF_DNA_ligase_family, The Oligonucleotide/oligosaccharide binding (OB)-fold domain is a DNA-binding module that is part of the catalytic core unit of ATP dependent DNA ligases	Back alignment and domain information

>gnl\|CDD\|153440 cd07971, OBF_DNA_ligase_LigD, The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit	Back alignment and domain information

>gnl\|CDD\|215978 pfam00533, BRCT, BRCA1 C Terminus (BRCT) domain	Back alignment and domain information

>gnl\|CDD\|218206 pfam04675, DNA_ligase_A_N, DNA ligase N terminus	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		1159
KOG0966		881	consensus ATP-dependent DNA ligase IV [Replication	100.0
PLN03113		744	DNA ligase 1; Provisional	100.0
PRK01109		590	ATP-dependent DNA ligase; Provisional	100.0
KOG0967		714	consensus ATP-dependent DNA ligase I [Replication,	100.0
TIGR00574		514	dnl1 DNA ligase I, ATP-dependent (dnl1). All prote	100.0
PRK09247		539	ATP-dependent DNA ligase; Validated	100.0
PRK03180		508	ligB ATP-dependent DNA ligase; Reviewed	100.0
PHA02587		488	30 DNA ligase; Provisional	100.0
COG1793		444	CDC9 ATP-dependent DNA ligase [DNA replication, re	100.0
TIGR02779		298	NHEJ_ligase_lig DNA polymerase LigD, ligase domain	100.0
PRK09632		764	ATP-dependent DNA ligase; Reviewed	100.0
PRK08224		350	ligC ATP-dependent DNA ligase; Reviewed	100.0
PRK05972		860	ligD ATP-dependent DNA ligase; Reviewed	100.0
PRK09633		610	ligD ATP-dependent DNA ligase; Reviewed	100.0
PRK07636		275	ligB ATP-dependent DNA ligase; Reviewed	100.0
cd07900		219	Adenylation_DNA_ligase_I_Euk Adenylation domain of	100.0
TIGR02776		552	NHEJ_ligase_prk DNA ligase D. Members of this prot	100.0
cd07903		225	Adenylation_DNA_ligase_IV Adenylation domain of DN	100.0
cd07902		213	Adenylation_DNA_ligase_III Adenylation domain of D	100.0
cd07901		207	Adenylation_DNA_ligase_Arch_LigB Adenylation domai	100.0
PRK09125		282	DNA ligase; Provisional	100.0
PHA00454		315	ATP-dependent DNA ligase	100.0
cd07897		207	Adenylation_DNA_ligase_Bac1 Adenylation domain of	100.0
cd08039		235	Adenylation_DNA_ligase_Fungal Adenylation domain o	100.0
cd07898		201	Adenylation_DNA_ligase Adenylation domain of ATP-d	100.0
PF01068		202	DNA_ligase_A_M: ATP dependent DNA ligase domain; I	100.0
cd07905		194	Adenylation_DNA_ligase_LigC Adenylation domain of	100.0
cd07906		190	Adenylation_DNA_ligase_LigD_LigC Adenylation domai	100.0
cd07967		139	OBF_DNA_ligase_III The Oligonucleotide/oligosaccha	99.97
cd07896		174	Adenylation_kDNA_ligase_like Adenylation domain of	99.97
cd06846		182	Adenylation_DNA_ligase_like Adenylation domain of	99.96
PF04675		177	DNA_ligase_A_N: DNA ligase N terminus; InterPro: I	99.96
cd07968		140	OBF_DNA_ligase_IV The Oligonucleotide/oligosacchar	99.95
cd07969		144	OBF_DNA_ligase_I The Oligonucleotide/oligosacchari	99.94
cd07972		122	OBF_DNA_ligase_Arch_LigB The Oligonucleotide/oligo	99.92
KOG4437		482	consensus ATP-dependent DNA ligase III [Replicatio	99.92
cd07895		215	Adenylation_mRNA_capping Adenylation domain of GTP	99.92
cd07893		129	OBF_DNA_ligase The Oligonucleotide/oligosaccharide	99.91
cd07971		115	OBF_DNA_ligase_LigD The Oligonucleotide/oligosacch	99.78
PF04679		97	DNA_ligase_A_C: ATP dependent DNA ligase C termina	99.74
cd08040		108	OBF_DNA_ligase_family The Oligonucleotide/oligosac	99.73
cd07894		342	Adenylation_RNA_ligase Adenylation domain of RNA c	99.63
cd07970		122	OBF_DNA_ligase_LigC The Oligonucleotide/oligosacch	99.61
PF00533		78	BRCT: BRCA1 C Terminus (BRCT) domain; InterPro: IP	99.14
PF01331		192	mRNA_cap_enzyme: mRNA capping enzyme, catalytic do	99.06
smart00292		80	BRCT breast cancer carboxy-terminal domain.	98.96
KOG1929		811	consensus Nucleotide excision repair factor NEF2,	98.9
cd08041		77	OBF_kDNA_ligase_like The Oligonucleotide/oligosacc	98.89
KOG3524		850	consensus Predicted guanine nucleotide exchange fa	98.86
COG5226		404	CEG1 mRNA capping enzyme, guanylyltransferase (alp	98.85
cd00027		72	BRCT Breast Cancer Suppressor Protein (BRCA1), car	98.78
PF00533		78	BRCT: BRCA1 C Terminus (BRCT) domain; InterPro: IP	98.68
KOG3226		508	consensus DNA repair protein [Replication, recombi	98.63
COG1423		382	ATP-dependent DNA ligase, homolog of eukaryotic li	98.52
smart00292		80	BRCT breast cancer carboxy-terminal domain.	98.5
TIGR01209		374	RNA ligase, Pab1020 family. Members of this family	98.49
PF12738		63	PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2W	98.44
PRK07956		665	ligA NAD-dependent DNA ligase LigA; Validated	98.36
cd00027		72	BRCT Breast Cancer Suppressor Protein (BRCA1), car	98.24
KOG3548		1176	consensus DNA damage checkpoint protein RHP9/CRB2/	98.12
PF11411		36	DNA_ligase_IV: DNA ligase IV; InterPro: IPR021536	98.1
KOG1929		811	consensus Nucleotide excision repair factor NEF2,	98.08
cd09232		186	Snurportin-1_C C-terminal m3G cap-binding domain o	98.08
KOG2481		570	consensus Protein required for normal rRNA process	97.95
COG0272		667	Lig NAD-dependent DNA ligase (contains BRCT domain	97.85
PF14743		66	DNA_ligase_OB_2: DNA ligase OB-like domain; PDB: 2	97.83
COG5163		591	NOP7 Protein required for biogenesis of the 60S ri	97.68
PLN03122		815	Poly [ADP-ribose] polymerase; Provisional	97.58
smart00532		441	LIGANc Ligase N family.	97.52
KOG2481		570	consensus Protein required for normal rRNA process	97.52
cd00114		307	LIGANc NAD+ dependent DNA ligase adenylation domai	97.42
PF12738		63	PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2W	97.3
PRK08097		562	ligB NAD-dependent DNA ligase LigB; Reviewed	97.19
KOG3226		508	consensus DNA repair protein [Replication, recombi	97.17
TIGR00575		652	dnlj DNA ligase, NAD-dependent. The member of this	97.15
PF01653		315	DNA_ligase_aden: NAD-dependent DNA ligase adenylat	97.06
PRK14351		689	ligA NAD-dependent DNA ligase LigA; Provisional	96.94
PLN03123		981	poly [ADP-ribose] polymerase; Provisional	96.81
COG5163		591	NOP7 Protein required for biogenesis of the 60S ri	96.7
PRK01109		590	ATP-dependent DNA ligase; Provisional	96.57
PRK14350		669	ligA NAD-dependent DNA ligase LigA; Provisional	96.55
PLN03122		815	Poly [ADP-ribose] polymerase; Provisional	96.24
KOG4362		684	consensus Transcriptional regulator BRCA1 [Replica	96.19
TIGR02307		325	RNA_lig_RNL2 RNA ligase, Rnl2 family. Members of t	96.09
PRK14350		669	ligA NAD-dependent DNA ligase LigA; Provisional	95.62
PLN03123		981	poly [ADP-ribose] polymerase; Provisional	95.57
PF09414		186	RNA_ligase: RNA ligase; InterPro: IPR021122 This e	95.51
KOG2093		1016	consensus Translesion DNA polymerase - REV1 deoxyc	95.37
PRK14351		689	ligA NAD-dependent DNA ligase LigA; Provisional	95.24
PRK06063		313	DNA polymerase III subunit epsilon; Provisional	94.95
PRK06195		309	DNA polymerase III subunit epsilon; Validated	94.89
TIGR00575		652	dnlj DNA ligase, NAD-dependent. The member of this	94.61
COG5275		276	BRCT domain type II [General function prediction o	94.34
KOG2043		896	consensus Signaling protein SWIFT and related BRCT	94.11
PHA02142		366	putative RNA ligase	92.67
KOG2043		896	consensus Signaling protein SWIFT and related BRCT	90.73
TIGR02306		341	RNA_lig_DRB0094 RNA ligase, DRB0094 family. The me	89.37
KOG3132		325	consensus m3G-cap-specific nuclear import receptor	89.0
PRK09247		539	ATP-dependent DNA ligase; Validated	86.71
KOG3548		1176	consensus DNA damage checkpoint protein RHP9/CRB2/	86.27
KOG0966		881	consensus ATP-dependent DNA ligase IV [Replication	85.04
PRK03180		508	ligB ATP-dependent DNA ligase; Reviewed	84.1
KOG4362		684	consensus Transcriptional regulator BRCA1 [Replica	80.46
PF04675		177	DNA_ligase_A_N: DNA ligase N terminus; InterPro: I	80.25

>KOG0966 consensus ATP-dependent DNA ligase IV [Replication, recombination and repair]	Back alignment and domain information

Probab=100.00  E-value=4.6e-150  Score=1309.76  Aligned_cols=852  Identities=41%  Similarity=0.685  Sum_probs=706.1

Q ss_pred             CCCCCcHHHHHHHHHHHHhhCChHHHHHHHHHHHhhcCCC----chHHHHHHHhCCCCCCCccccCCCHHHHHHHHHHHh
Q 001089            3 KTEETEVIVLVSLFNWIQKTKPAAKKRSKFRKFLDTYCDS----VDYFSALRLILPSLDRERGSYGLKESVLANCLIDAL   78 (1159)
Q Consensus         3 ~~~~~~F~~l~~lle~i~~~~~~~~K~~~l~~~l~~~~~~----~d~~p~lrLllP~~d~~r~~ygike~~L~k~~~~~l   78 (1159)
                      ||+++.|+.+|++|+.|+.+.....|++++++++.+|+.+    +|+||++||++|++||+|+.||||+..|+++|+++|
T Consensus         1 ~~~~~~F~~~~~~f~~i~~t~~~~~k~~~~~k~~~s~~~~~e~~sd~y~~lRL~lp~lDReR~~Yglket~La~l~i~~l   80 (881)
T KOG0966|consen    1 MASPQNFSEVVDFFNKIRRTSNVKSKQAKFRKNFESWCRPCEVGSDMYVALRLILPDLDRERGSYGLKETVLARLYIRAL   80 (881)
T ss_pred             CCCccccchHHHHHHHHHHhhhhHhHHHHHhhccccccccccCCcchhhhhhhcccchhhcccccCchHHHHHHHHHHHh
Confidence            7899999999999999999999999999999999999876    999999999999999999999999999999999999


Q ss_pred             CCCcChHHHHHHhhhhcCCCCCCCCCHHHHHHHHhhhccCCC-CCCCCHHHHHHHHHHHHhhhhHHHHH-HHHHHHHHhC
Q 001089           79 GMSKDSADAVRLINWRKGGAAPNAGNFPMVAAEVLQRRQGMI-SGGLTIKELNDLLDRLASSENRAEKI-SVLSTLIKKT  156 (1159)
Q Consensus        79 gl~~~s~~~~~L~~wk~~~~~~~~GD~~~~a~~vl~~r~~~~-~~~LTi~eVn~~Ld~LA~~~~~~~k~-~il~~ll~~~  156 (1159)
                      ++|++|.||++|.+|+.++.++  |||+.++++++++|+... ++.|||.|||++||.||+......+. ..|..++++|
T Consensus        81 ~lprds~Da~rL~nwr~~~~~~--Gdfs~i~~~vl~~R~~~~~s~alTi~evN~lLD~LA~~~~~~~~~~~~l~~lv~~~  158 (881)
T KOG0966|consen   81 HLPRDSADAVRLKNWRASTGAR--GDFSLILYEVLQRRCENPSSGALTIKEVNDLLDSLASGPSEDGKKFKKLSQLVEQC  158 (881)
T ss_pred             cCCCCcHHHHHHHhhccCCCcC--ccHHHHHHHHHHHHhcCCCCCceeHHHHHHHHHHHcCCchhhhhhhHHHHHHHHhC
Confidence            9999999999999999987755  999999999999998654 45599999999999999887655443 7899999999


Q ss_pred             CHHHHHHHHHHHHhhhccCCcccccccccCccHHHHhhhcCCHHHHHHHHhhhhccccccC--cccCCccccccccccCC
Q 001089          157 NAQEMKWIIMIILKDLKLGISEKSIFHEFHPDAEDLFNVTCDLKLVCEKLKDRNQRHKRQD--IEVGKAVRPQLAMRIGD  234 (1159)
Q Consensus       157 s~~E~k~l~RiIlkdLriGi~e~til~~~hpda~~~~~~~~dL~~V~~~L~~~~~~~~~~~--i~~g~p~~PMLA~~~~~  234 (1159)
                      ||.|+|||+|||||++++|+++++||.+|||||+++|++|+||+.||+.|.||+.+++..+  |++|..|+||||++...
T Consensus       159 S~~ElkWliriiLK~lklG~se~~Il~vfHPdA~dl~~vtsDLk~Vc~~L~Dp~~~l~~~~~~i~lfsa~~PqLa~~~~~  238 (881)
T KOG0966|consen  159 SPLELKWLIRIILKNLKLGASEKKILSVFHPDAQDLYNVTSDLKAVCKKLYDPSVGLKELDEDIELFSAFRPQLAQKQKL  238 (881)
T ss_pred             CHHHHHHHHHHHHHhhhcCCccchhhhhcCccHHHHHHHhhhHHHHHHHhcCCccCccccccceeehhhcCHHHHhhhcc
Confidence            9999999999999999999999999999999999999999999999999999999998877  99999999999999877


Q ss_pred             hH-HHHHhcCCCcEEEEEecceEEEEEEEeCCEEEEEecCCCCcCcc-----hhh-HHHHHHHhc--ccCceeecceEEE
Q 001089          235 AH-AAWRKLHGKEVVIECKFDGDRIQIHKNGSEIHYFSRSFLDHSEY-----GHA-MSKIIEQNV--LVDRCILDGEMLV  305 (1159)
Q Consensus       235 ~~-~~~~k~~~~~~~vE~K~DGeR~qih~~g~~v~~fSR~g~d~t~~-----~p~-l~~~l~~~~--~~~~~ILDGElv~  305 (1159)
                      .. +++++|++.+|++|+|+||||+|+|++|+.++||||||.|||..     ..+ +...+...+  .+..||||||||+
T Consensus       239 ~~~~~~e~m~~~~f~lEtK~DGERiQlHk~g~~~~yfSRNg~dyT~~yg~s~~~g~lt~~i~~~f~~~v~~cILDGEMm~  318 (881)
T KOG0966|consen  239 GDWAIIEKMGGQDFYLETKFDGERIQLHKDGGEYKYFSRNGNDYTYEYGASYAHGTLTQRIHGAFNKEVESCILDGEMMT  318 (881)
T ss_pred             chHHHHHHhcCCceEEEeeccCceEEEEecCCEEEEEecCCcchhhhcCcccccccccHHHHhhhhhcchheEecceEEE
Confidence            66 68999999999999999999999999999999999999999932     122 223333222  2789999999999


Q ss_pred             EeCCCCcccccccHHHHHHHhhcCCCCCCCeEEEEEeeeecCCccccCCCHHHHHHHHHHhhccCCCcceeeccCCCCCc
Q 001089          306 WDTSLNRFAEFGSNQEIAKAARDGLSSDRQLCYFAFDVLYVGDTSVIHQSLKERHELLQKVVKPSKGRLETLVPDHGLNS  385 (1159)
Q Consensus       306 ~d~~~~~~~pFg~lq~i~~~~r~~~~~~~~~~~~vFDiL~lnG~~l~~~pl~eRr~~L~~~i~~~~~~~~i~~p~~~~~~  385 (1159)
                      ||+.+.+++|||+++++......  +.+.++||+|||+||+||++|.+.||.+|+++|..++.+.+++++++        
T Consensus       319 wD~~~~~f~~~G~~~dik~~~~~--~~~~qp~yvvfDLLylNgksL~~~~l~qR~e~L~~v~~p~~~~iei~--------  388 (881)
T KOG0966|consen  319 WDTKTKRFCPFGSNSDIKELSSR--DGSQQPCYVVFDLLYLNGKSLFGAPLHQRLEILKKVIVPKSGRIEIV--------  388 (881)
T ss_pred             eecchhhhccCCchhhHHHhhcc--ccCCCceEEEeeeeeecCcccCCccHHHHHHHHHhcccCCCCeeEEe--------
Confidence            99999999999999988766542  45689999999999999999999999999999999999999998765        


Q ss_pred             cccCCCCCccceecCCHHHHHHHHHHHHHcCCceEEEecCCCCCcCCCCCCCeEEEcccccc-cCCcccEEEEEEEeCCC
Q 001089          386 HVRPQGEPCWSLVAHNVDEVEKFFKETIENRDEGIVLKDLGSKWEPGDRSGKWLKLKPEYIR-AGSDLDVLIIGGYYGSG  464 (1159)
Q Consensus       386 ~v~~~~~~~~~~~~~~~~ei~~~~~~ai~~g~EGlVlK~~ds~Y~pGkRs~~WlKiKpey~~-~g~~lDlvVIG~~~G~G  464 (1159)
                               +...+++.++|+++|++||++|.||||+|.++|.|.||.|+++|+|+||+|+. +|+++|++|||||||.|
T Consensus       389 ---------~~~~~~~~edi~~~f~~ai~~~~EGIVlK~~~S~Y~pg~R~~gW~K~KPeYlkg~g~dLD~lIiGgy~G~g  459 (881)
T KOG0966|consen  389 ---------RSEVGSTKEDIEQFFEEAIDNGEEGIVLKKPDSSYVPGQRSNGWIKLKPEYLKGFGEDLDLLIIGGYYGRG  459 (881)
T ss_pred             ---------ehhhcccHHHHHHHHHHHHhcCCCceEEeccCcccCccccCCCcEeecHHHHhhcCccccEEEEecccCCC
Confidence                     24568899999999999999999999999999999999999999999999999 58999999999999999


Q ss_pred             CCCCccceEEEEEecCCCCCCCCceEEEEEEecCCCCHHHHHHHHHhhcccccccCCCCCCCCCcccccCCCCCCCcEEE
Q 001089          465 RRGGEVAQFLVALAERPAPDTYPRRFISFCRVGTGLSDEELDAVVTKLKPYFRKYEYPKRAPPSFYQVTNNSKERPDVWI  544 (1159)
Q Consensus       465 rr~g~~gsfllg~~d~~~~~~~~~~f~~v~kVgtG~sdeel~~l~~~l~~~~~~~~~~~~~pP~~~~~~~~~~~~Pdvwi  544 (1159)
                      +++|.+.+|+||+.++..++.+|.+|.++|+||+|+|++|+..+.++|++||.+ .....+|++++..+   ...||+||
T Consensus       460 ~rgg~~~~fl~a~~ek~~p~~~p~~f~sfcrvg~g~s~~e~~~v~~klr~~w~~-~~~~apP~s~l~~t---k~~Pd~wI  535 (881)
T KOG0966|consen  460 DRGGKVLSFLCALAEKAPPNSRPEKFCSFCRVGNGISQKERDTVREKLRGHWKP-TSLEAPPESFLFGT---KKIPDVWI  535 (881)
T ss_pred             CCCCeeeeeeehhcccCCCCCccceeeEeeEecCCccHHHHHHHHHhhhhhccc-ccccCCCHHHHhcc---cCCCceeE
Confidence            999999999999998877777899999999999999999999999999999987 24444344444433   34799999


Q ss_pred             eCCcceEEEEEEeeeeeeecccccCCceeeCceeeeeecCCCccCcCCHHHHHHHHHccCCCcccccccCCCCCCCCccc
Q 001089          545 ESPEKSIILSITSDIRTIRSEVFSAPYSLRFPRIDRVRYDKPWHDCLDVQSFVELVHSSNGTTQKGKEYGGLQDDKPKQF  624 (1159)
Q Consensus       545 ~~P~~s~Vlev~a~i~~i~s~~~~~g~tLRFPR~~riR~DK~~~d~~t~~el~~l~~~~~~~~~~~~~~~~~~~~~~~~~  624 (1159)
                      + |..|+|++|++ .+++.+..|.++|||||||+.+||+||+|+||+|+++|.++...+.       ++.+.+. ++++ 
T Consensus       536 ~-P~~SiIlqika-a~i~~s~~f~tn~tLrfPr~ekvR~DK~W~ec~tl~~l~~l~~~~~-------~d~~~~~-kk~~-  604 (881)
T KOG0966|consen  536 D-PDNSIILQIKA-AEIVPSSNFVTNYTLRFPRIEKVRLDKPWHECLTLNELGDLVNVSK-------SDVEDKE-KKKR-  604 (881)
T ss_pred             C-CCCceEEEeeh-heeeecccccccceeecceeeeeecCCcHHHHhhHHHHHHHhcccc-------CCcchhh-hhcc-
Confidence            9 99999999995 3456899999999999999999999999999999999999985311       1111111 1111 


Q ss_pred             ccccccccccccccCCccccCccccccCCCCcccCeEEEEEcCC-CCCChHHHHHHHHHcCCEEEecCCCCceEEEE-ec
Q 001089          625 RSSRKGEKKNVSIVPSHFLQTDVSDIKGETSIFSDMVFYFVNVP-PAYSLDSLHKMVVENGGTFSMNLNNSVTHCVA-AD  702 (1159)
Q Consensus       625 ~~~~~~~~~~~~~~~~~~~~~~~s~~~~~s~lF~G~~F~vv~~~-~~~~k~eLe~lI~~~GG~iv~n~~~~~Th~Ia-~~  702 (1159)
                      .+.+++++.+.   .-+...+..+.+.+.|++|.|+.|||+++. ...++.+|+++|++|||++++|++++.|+||+ ++
T Consensus       605 ~t~~~~k~~~~---~i~~~~~~~~~~~~~s~if~gl~f~Vlsgt~~~~tk~~le~~ivenGG~iv~nv~p~~~~ci~~a~  681 (881)
T KOG0966|consen  605 DTLKVRKRTRK---AIHDSAPNRSKVAKISNIFDGLEFCVLSGTSETHTKAKLEEIIVENGGKIVQNVGPSDTLCIATAG  681 (881)
T ss_pred             cchhhhhhhhh---hhcccccchhcccchhhhhcCeeEEEecCCcccccHHHHHHHHHHcCCEEEEcCCCCCcceEEecc
Confidence            11111111111   123344566677889999999999999876 45679999999999999999999988999996 33


Q ss_pred             C--CChhhHhHhcCCCeeecchHHHHHhcCccCCCCcccccccChhhhhhhhhcccccCCCcccCCChhHHHHHhhccCC
Q 001089          703 N--KGLKYEAAKRRGDVIHYSWVLDCCSQKKLLQLQPKYYLHLSDSSKKKLQEEVDEFSDLYFWDLDLADIKQLLSNVDR  780 (1159)
Q Consensus       703 ~--~~~k~~~a~~~~~VV~p~WV~dCi~~~~lLp~~p~~~l~~s~~t~~~~~~~~D~~GDSy~~~~~~~~L~~ll~~~~~  780 (1159)
                      .  .+.++.++.+..+||+|+||+||++..+++||.|++++++++.+++.++..+|+|||||++|++.+.|+.+++.+..
T Consensus       682 ~et~~vk~~~~~~~cdVl~p~Wlldcc~~~~l~p~~P~~~fh~~e~~~~~~a~~~D~~gdSy~~di~l~~l~~~ls~~k~  761 (881)
T KOG0966|consen  682 KETTRVKAQAIKRSCDVLKPAWLLDCCKKQRLLPWLPRDLFHATEKGREKLAKEVDCLGDSYENDIDLEQLKKVLSGIKK  761 (881)
T ss_pred             ccchHHHHHHHhccCceeeHHHHHHHHhhhhccccccHHHHhhCchHHHHHHHHHhhhcchhhhhccHHHHHHHHhhhhh
Confidence            3  33455555565599999999999999999999999999999999999999999999999999999999999998887


Q ss_pred             CCCcchhHHHhhhcCCCCCCCcCCCeEEEEcCCCCCCCCchHHHHHHHHHHHHHHHHhcCCEEEccCC-------CceEE
Q 001089          781 SEDPKTIDYYKKKYCPQDKWSCFHGCCIYFYHSTEPLSPDWEVLLGLALRRLKLEISFHGGKVCNNLA-------NATHV  853 (1159)
Q Consensus       781 s~~~~~i~~l~~~~~~~~~~~lF~gc~~yl~~~~~~~~~d~~~i~~~~~~~l~~~I~~~GG~v~~~ls-------~vTHV  853 (1159)
                      +.+...........++...+.+|.-|..+|+......+.+        .......+..+||.+.+.-.       .+||+
T Consensus       762 S~ds~~~~~~~~~~~~e~r~~~~~~~~~~f~~~~~~~~se--------~~~~~l~~k~~g~~i~~~~~~~~~~~~~~t~~  833 (881)
T KOG0966|consen  762 SQDSLPPMGASEKDSLERRFSLFLSSLRMFYVLRRKLSSE--------EVIIELKLKNFGGRITDAQSECNNIGAKYTHC  833 (881)
T ss_pred             cccccCchhhhhhhcHHHhhccccccceeeecccccccHH--------HHHHHHHHHHhcceeeeccchhhhcccceeee
Confidence            6654322211111112222333333333333333222222        23445567888999887643       36999


Q ss_pred             EEeccCCcccchhhHHHHHHHHhhhhccCCccEEecccHHHHHHHcCCccCCCCCC
Q 001089          854 VVLSVLGYDVNFNSLTESFTAREKHLLWNKKLHVVRSQWLEDCLAKEQKSEEYEYS  909 (1159)
Q Consensus       854 IV~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~IVs~~WL~~ci~~g~~v~E~~Y~  909 (1159)
                      |+...+     ......+..  .......++ +||.+.||.+|+.+++++||++|.
T Consensus       834 v~~~i~-----~~h~~~~~~--~~~~lt~~r-kv~~~~wv~~s~~~~~~~~e~~~~  881 (881)
T KOG0966|consen  834 VLRCID-----EDHEKIKEQ--KKASLTIKR-KVVAPSWVDHSINENCLLPEEDFP  881 (881)
T ss_pred             eeeecc-----hHHHHHHHH--HHHHhcccc-cccCHHHHHHhhcccccCccccCC
Confidence            987322     111111111  111122234 999999999999999999999984

>PLN03113 DNA ligase 1; Provisional	Back alignment and domain information

>PRK01109 ATP-dependent DNA ligase; Provisional	Back alignment and domain information

>KOG0967 consensus ATP-dependent DNA ligase I [Replication, recombination and repair]	Back alignment and domain information

>TIGR00574 dnl1 DNA ligase I, ATP-dependent (dnl1)	Back alignment and domain information

>PRK09247 ATP-dependent DNA ligase; Validated	Back alignment and domain information

>PRK03180 ligB ATP-dependent DNA ligase; Reviewed	Back alignment and domain information

>PHA02587 30 DNA ligase; Provisional	Back alignment and domain information

>COG1793 CDC9 ATP-dependent DNA ligase [DNA replication, recombination, and repair]	Back alignment and domain information

>TIGR02779 NHEJ_ligase_lig DNA polymerase LigD, ligase domain	Back alignment and domain information

>PRK09632 ATP-dependent DNA ligase; Reviewed	Back alignment and domain information

>PRK08224 ligC ATP-dependent DNA ligase; Reviewed	Back alignment and domain information

>PRK05972 ligD ATP-dependent DNA ligase; Reviewed	Back alignment and domain information

>PRK09633 ligD ATP-dependent DNA ligase; Reviewed	Back alignment and domain information

>PRK07636 ligB ATP-dependent DNA ligase; Reviewed	Back alignment and domain information

>cd07900 Adenylation_DNA_ligase_I_Euk Adenylation domain of eukaryotic DNA Ligase I	Back alignment and domain information

>TIGR02776 NHEJ_ligase_prk DNA ligase D	Back alignment and domain information

>cd07903 Adenylation_DNA_ligase_IV Adenylation domain of DNA Ligase IV	Back alignment and domain information

>cd07902 Adenylation_DNA_ligase_III Adenylation domain of DNA Ligase III	Back alignment and domain information

>cd07901 Adenylation_DNA_ligase_Arch_LigB Adenylation domain of archaeal and bacterial LigB-like DNA ligases	Back alignment and domain information

>PRK09125 DNA ligase; Provisional	Back alignment and domain information

>PHA00454 ATP-dependent DNA ligase	Back alignment and domain information

>cd07897 Adenylation_DNA_ligase_Bac1 Adenylation domain of putative bacterial ATP-dependent DNA ligases	Back alignment and domain information

>cd08039 Adenylation_DNA_ligase_Fungal Adenylation domain of uncharacterized fungal ATP-dependent DNA ligase-like proteins	Back alignment and domain information

>cd07898 Adenylation_DNA_ligase Adenylation domain of ATP-dependent DNA Ligases	Back alignment and domain information

>PF01068 DNA_ligase_A_M: ATP dependent DNA ligase domain; InterPro: IPR012310 DNA ligase (polydeoxyribonucleotide synthase) is the enzyme that joins two DNA fragments by catalysing the formation of an internucleotide ester bond between phosphate and deoxyribose	Back alignment and domain information

>cd07905 Adenylation_DNA_ligase_LigC Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases	Back alignment and domain information

>cd07906 Adenylation_DNA_ligase_LigD_LigC Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases	Back alignment and domain information

>cd07967 OBF_DNA_ligase_III The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase III is a DNA-binding module that is part of the catalytic core unit	Back alignment and domain information

>cd07896 Adenylation_kDNA_ligase_like Adenylation domain of kDNA ligases and similar proteins	Back alignment and domain information

>cd06846 Adenylation_DNA_ligase_like Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases	Back alignment and domain information

>PF04675 DNA_ligase_A_N: DNA ligase N terminus; InterPro: IPR012308 DNA ligase (polydeoxyribonucleotide synthase) is the enzyme that joins two DNA fragments by catalysing the formation of an internucleotide ester bond between phosphate and deoxyribose	Back alignment and domain information

>cd07968 OBF_DNA_ligase_IV The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase IV is a DNA-binding module that is part of the catalytic core unit	Back alignment and domain information

>cd07969 OBF_DNA_ligase_I The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase I is a DNA-binding module that is part of the catalytic core unit	Back alignment and domain information

>cd07972 OBF_DNA_ligase_Arch_LigB The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit	Back alignment and domain information

>KOG4437 consensus ATP-dependent DNA ligase III [Replication, recombination and repair]	Back alignment and domain information

>cd07895 Adenylation_mRNA_capping Adenylation domain of GTP-dependent mRNA capping enzymes	Back alignment and domain information

>cd07893 OBF_DNA_ligase The Oligonucleotide/oligosaccharide binding (OB)-fold domain is a DNA-binding module that is part of the catalytic core unit of ATP dependent DNA ligases	Back alignment and domain information

>cd07971 OBF_DNA_ligase_LigD The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit	Back alignment and domain information

>PF04679 DNA_ligase_A_C: ATP dependent DNA ligase C terminal region ; InterPro: IPR012309 DNA ligase (polydeoxyribonucleotide synthase) is the enzyme that joins two DNA fragments by catalysing the formation of an internucleotide ester bond between phosphate and deoxyribose	Back alignment and domain information

>cd08040 OBF_DNA_ligase_family The Oligonucleotide/oligosaccharide binding (OB)-fold domain is a DNA-binding module that is part of the catalytic core unit of ATP dependent DNA ligases	Back alignment and domain information

>cd07894 Adenylation_RNA_ligase Adenylation domain of RNA circularization proteins	Back alignment and domain information

>cd07970 OBF_DNA_ligase_LigC The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigC is a DNA-binding module that is part of the catalytic core unit	Back alignment and domain information

>PF00533 BRCT: BRCA1 C Terminus (BRCT) domain; InterPro: IPR001357 The BRCT domain (after the C_terminal domain of a breast cancer susceptibility protein) is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage [], for example as found in the breast cancer DNA-repair protein BRCA1	Back alignment and domain information

>PF01331 mRNA_cap_enzyme: mRNA capping enzyme, catalytic domain; InterPro: IPR001339 The mRNA capping enzyme in yeasts is composed of two separate chains, alpha a mRNA guanyltransferase and beta an RNA 5'-triphosphate	Back alignment and domain information

>smart00292 BRCT breast cancer carboxy-terminal domain	Back alignment and domain information

>KOG1929 consensus Nucleotide excision repair factor NEF2, RAD4/CUT5 component [Replication, recombination and repair]	Back alignment and domain information

>cd08041 OBF_kDNA_ligase_like The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit	Back alignment and domain information

>KOG3524 consensus Predicted guanine nucleotide exchange factor (PEBBLE) [Signal transduction mechanisms]	Back alignment and domain information

>COG5226 CEG1 mRNA capping enzyme, guanylyltransferase (alpha) subunit [RNA processing and modification]	Back alignment and domain information

>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain	Back alignment and domain information

>PF00533 BRCT: BRCA1 C Terminus (BRCT) domain; InterPro: IPR001357 The BRCT domain (after the C_terminal domain of a breast cancer susceptibility protein) is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage [], for example as found in the breast cancer DNA-repair protein BRCA1	Back alignment and domain information

>KOG3226 consensus DNA repair protein [Replication, recombination and repair]	Back alignment and domain information

>COG1423 ATP-dependent DNA ligase, homolog of eukaryotic ligase III [DNA replication, recombination, and repair]	Back alignment and domain information

>smart00292 BRCT breast cancer carboxy-terminal domain	Back alignment and domain information

>TIGR01209 RNA ligase, Pab1020 family	Back alignment and domain information

>PF12738 PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2WT8_C 3EF1_A 3EF0_A	Back alignment and domain information

>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated	Back alignment and domain information

>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain	Back alignment and domain information

>KOG3548 consensus DNA damage checkpoint protein RHP9/CRB2/53BP1 [Replication, recombination and repair]	Back alignment and domain information

>PF11411 DNA_ligase_IV: DNA ligase IV; InterPro: IPR021536 DNA ligase IV along with Xrcc4 functions in DNA non-homologous end joining	Back alignment and domain information

>KOG1929 consensus Nucleotide excision repair factor NEF2, RAD4/CUT5 component [Replication, recombination and repair]	Back alignment and domain information

>cd09232 Snurportin-1_C C-terminal m3G cap-binding domain of nuclear import adaptor snurportin-1	Back alignment and domain information

>KOG2481 consensus Protein required for normal rRNA processing [RNA processing and modification]	Back alignment and domain information

>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]	Back alignment and domain information

>PF14743 DNA_ligase_OB_2: DNA ligase OB-like domain; PDB: 2Q2U_D 2Q2T_A 1FVI_A 1P8L_A	Back alignment and domain information

>COG5163 NOP7 Protein required for biogenesis of the 60S ribosomal subunit [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PLN03122 Poly [ADP-ribose] polymerase; Provisional	Back alignment and domain information

>smart00532 LIGANc Ligase N family	Back alignment and domain information

>KOG2481 consensus Protein required for normal rRNA processing [RNA processing and modification]	Back alignment and domain information

>cd00114 LIGANc NAD+ dependent DNA ligase adenylation domain	Back alignment and domain information

>PF12738 PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2WT8_C 3EF1_A 3EF0_A	Back alignment and domain information

>PRK08097 ligB NAD-dependent DNA ligase LigB; Reviewed	Back alignment and domain information

>KOG3226 consensus DNA repair protein [Replication, recombination and repair]	Back alignment and domain information

>TIGR00575 dnlj DNA ligase, NAD-dependent	Back alignment and domain information

>PF01653 DNA_ligase_aden: NAD-dependent DNA ligase adenylation domain; InterPro: IPR013839 DNA ligase (polydeoxyribonucleotide synthase) is the enzyme that joins two DNA fragments by catalyzing the formation of an internucleotide ester bond between phosphate and deoxyribose	Back alignment and domain information

>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional	Back alignment and domain information

>PLN03123 poly [ADP-ribose] polymerase; Provisional	Back alignment and domain information

>COG5163 NOP7 Protein required for biogenesis of the 60S ribosomal subunit [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PRK01109 ATP-dependent DNA ligase; Provisional	Back alignment and domain information

>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional	Back alignment and domain information

>PLN03122 Poly [ADP-ribose] polymerase; Provisional	Back alignment and domain information

>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]	Back alignment and domain information

>TIGR02307 RNA_lig_RNL2 RNA ligase, Rnl2 family	Back alignment and domain information

>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional	Back alignment and domain information

>PLN03123 poly [ADP-ribose] polymerase; Provisional	Back alignment and domain information

>PF09414 RNA_ligase: RNA ligase; InterPro: IPR021122 This entry represents the RNA ligase domain	Back alignment and domain information

>KOG2093 consensus Translesion DNA polymerase - REV1 deoxycytidyl transferase [Replication, recombination and repair]	Back alignment and domain information

>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional	Back alignment and domain information

>PRK06063 DNA polymerase III subunit epsilon; Provisional	Back alignment and domain information

>PRK06195 DNA polymerase III subunit epsilon; Validated	Back alignment and domain information

>TIGR00575 dnlj DNA ligase, NAD-dependent	Back alignment and domain information

>COG5275 BRCT domain type II [General function prediction only]	Back alignment and domain information

>KOG2043 consensus Signaling protein SWIFT and related BRCT domain proteins [Transcription; Signal transduction mechanisms; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]	Back alignment and domain information

>PHA02142 putative RNA ligase	Back alignment and domain information

>KOG2043 consensus Signaling protein SWIFT and related BRCT domain proteins [Transcription; Signal transduction mechanisms; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]	Back alignment and domain information

>TIGR02306 RNA_lig_DRB0094 RNA ligase, DRB0094 family	Back alignment and domain information

>KOG3132 consensus m3G-cap-specific nuclear import receptor (Snurportin1) [RNA processing and modification]	Back alignment and domain information

>PRK09247 ATP-dependent DNA ligase; Validated	Back alignment and domain information

>KOG3548 consensus DNA damage checkpoint protein RHP9/CRB2/53BP1 [Replication, recombination and repair]	Back alignment and domain information

>KOG0966 consensus ATP-dependent DNA ligase IV [Replication, recombination and repair]	Back alignment and domain information

>PRK03180 ligB ATP-dependent DNA ligase; Reviewed	Back alignment and domain information

>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]	Back alignment and domain information

>PF04675 DNA_ligase_A_N: DNA ligase N terminus; InterPro: IPR012308 DNA ligase (polydeoxyribonucleotide synthase) is the enzyme that joins two DNA fragments by catalysing the formation of an internucleotide ester bond between phosphate and deoxyribose	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
Query		1159
4hto_A		240	Crystal Structure Of The Dbd Domain Of Human Dna Li		2e-38
2hiv_A		621	Atp-Dependent Dna Ligase From S. Solfataricus Lengt		7e-33
3l2p_A		579	Human Dna Ligase Iii Recognizes Dna Ends By Dynamic		9e-31
3rr5_A		570	Dna Ligase From The Archaeon Thermococcus Sp. 1519		2e-29
4eq5_A		571	Dna Ligase From The Archaeon Thermococcus Sibiricus		9e-29
2cfm_A		561	Atp-Dependent Dna Ligase From Pyrococcus Furiosus L		1e-28
1x9n_A		688	Crystal Structure Of Human Dna Ligase I Bound To 5'		5e-25
3gde_A		558	The Closed Conformation Of Atp-Dependent Dna Ligase		1e-19
3vnn_A		139	Crystal Structure Of A Sub-Domain Of The Nucleotidy		1e-16
3ii6_X		263	Structure Of Human Xrcc4 In Complex With The Tandem		1e-09
1vs0_A		310	Crystal Structure Of The Ligase Domain From M. Tube		2e-05

>pdb|4HTO|A Chain A, Crystal Structure Of The Dbd Domain Of Human Dna Ligase Iv Apo Form Length = 240