Citrus Sinensis ID: 002240

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-------95
MASKEISIDSCFGQSADLSPDQDAVRNDGSEPKVVEEIDNIHDLKDNETEKGLRNGNSCRVGSSTVRKLFTEDSVSQDKGLPNNGDNAAGGENLLQFPVNDDELAGLSYVDSQEPGEFSEANALTFVEQFIEKNNFVDFDHEVDLGKSKGGKSKPVSTAKGPQSLAKKSNDRSKAGKTGIYDWDDSREDEGGGDLFCRRKDEFFGTAYRAQRSLTEPRQLKKRKFDLDGNGEQQDVHDGITMRSDSRVTFNNIKKNEKKAEEAQLIVEKNLLSELDERLNADSSRGQPDAAVGKTDVSQILNVGPDTQLAAEAMEALLSGEGIANHDANCLQSNSKRSAEGSSRGKSKSRVSLKQSSSQKRVRLSGVGVATRQKRKSKSGTEISRCSPDNSVKNFKNISEKCDRELATLNKRRAKSMDEQNSTINGSKNMDRVSSGIIGQRNEDGSLESCQPKEFNRCLRTETQNADHSIKKQKIAKAPSASTPIAFRTRSSKAVIQLKTTGQILDYCIHDANHLMEVGAFEENVTCNKDVEASEVMHLKKKHSKLSSNQFGELKSTKPSQPEKLDLELTAMNNGVDGLRYPRGRRSRRNLSVQVSGCSAGMNVKVKSKDFKGSKTPNHSDGKIVVDSQPSAENAEMNSRLDKSPREQCEALESPCTSPANCITPVNAASPVCMGNGYIKQSCRKNLAKSCLVKEINRLIATEPEPLSPLKDLRKRRDMASIQVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPASLARARKHPLLKDQRVLITPNIKPSKETISSLIKSVHGQAVERLGRSALKDDKLPDDLLILSCEEDYEICEPFLEKGAAVYSSELLLNGMVTQKLEYERHRLFVDNVKRTRSTIWLRKDGHKFHPVTKLR
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHccHHHHHHHccccccccccccccccccccccccccccHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccHHHHHcccccccEEEEEccccHHHHHHHHHHHHHcccEEEcccccccEEEEccccccHHHHHHHHccccEEcHHHHHHHHHHcccccccccccccHHHHHHcccccHHHHHHccccccccccEEEEcccccccHHHHHHHHHHcccEEEEcccccccccccccccEEEEcccccHHccHHHHHccccEEcHHHHHHHHHHccccccccccccccccccccHHHHHcccccEEEccccc
ccccEEEEccccccccccccHHHcEcccccccccccEEccccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccHHHHHHHHcccccccccccEEccccccccccccEEEcccccccccccccccccccccHHcccccccccccccccccccEccccccHccccccHHccccccHHHHHHHcccHHHHHHHcccccccccccccccccccHHHccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccEEEEccccccccccccccEEEEEccccccccEEEEcccccccccccccccccccccEEEEEcccccccccccEEEccccccEccccccccccccccHcccccHHccccccccccccccccccccccccccccccEEEEccccccEEEEccccccccHHccccccccEccccHccccccccccccccccccccccccccccccccccccccccccccccEcccccccccccccccccccEEEEEEccccccccccccccccccccccccccccccEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccEEEEcccccHHHHHHHHHHHHHHcccEcccHHHHcEEEccHHHHHHHHHHHHHccccEccHHHHHHHHHcccccccccEEEccHHHHHHccccHHHHHHHHHccccccccEEEEcccccccHHHHHHHHHHHcccEcccccHHHHccccccccEEEEEcHHHHHHHHHHHHcccccccHHHHHHHHHEEcccccccccccccEEEccccEEEEccccEEEEccccc
maskeisidscfgqsadlspdqdavrndgsepkvveEIDNihdlkdnetekglrngnscrvgsSTVRKLftedsvsqdkglpnngdnaaggenllqfpvnddelaglsyvdsqepgefseanALTFVEQFIEknnfvdfdhevdlgkskggkskpvstakgpqslakksndrskagktgiydwddsredegggdlfcrrkdeffGTAYRaqrslteprqlkkrkfdldgngeqqdvhdgitmrsdsrvtfnNIKKNEKKAEEAQLIVEKNLLSELDERlnadssrgqpdaavgktdvsqilnvgpDTQLAAEAMEALLSGegianhdanclqsnskrsaegssrgksksrvslkqsssqkrvrlsgvgvatrqkrksksgteisrcspdnsvknfKNISEKCDRELATLNKRRAksmdeqnstingsknmdrvssgiigqrnedgslescqpkefnrclrtetqnadhsikkqkiakapsastpiafrTRSSKAVIQLKTTGQILDYCIHDANhlmevgafeenvtcnkdvEASEVMHLKKKhsklssnqfgelkstkpsqpeklDLELTAMnngvdglryprgrrsrrnlsvqvsgcsagmnvkvkskdfkgsktpnhsdgkivvdsqpsaenaemnsrldkspreqcealespctspancitpvnaaspvcmgngyikqsCRKNLAKSCLVKEINRLiatepeplsplkdlrkrrDMASIQVLFSHHLDEDIIKQQKKILDRlgasevssitdathfVTDIFVRTRNMLEAIasgkpvvtHLWLESIAQVKIHIDEesyllrdtkkekefgfsmpaSLARArkhpllkdqrvlitpnikpskETISSLIKSVHGQAVERLgrsalkddklpddlliLSCEEDYEICEPFLEKGAAVYSSELLLNGMVTQKLEYERHRLFVdnvkrtrstiwlrkdghkfhpvtklr
maskeisidscfgqsadlspdqdavrndgsepkvveeidnihdlkdnetekglrngnscrvgsSTVRKLFtedsvsqdkglpNNGDNAAGGENLLQFPVNDDELAGLSYVDSQEPGEFSEANALTFVEQFIEKNNFVDFDHEVDLgkskggkskpvstakgpqslakksndrskagktgiydwddsredegggdLFCRRKDEFFGTAyraqrslteprqlkkrkfdldgngeqqdvhdgitmrsdsrvtfnnIKKNEKKAEEAQLIVEKNLLSELDERLNadssrgqpdaavgktdvsqILNVGPDTQLAAEAMEALLSGEGIANHDANCLQSnskrsaegssrgksksrvslkqsssqkrvrlsgvgvatrqkrksksgteisrcspdnsvknfkniseKCDRELATLnkrraksmdeqnstingsknmdrvSSGIIGQRNEDGSLESCQPKEFNRCLRTetqnadhsikkqkiakapsastpiafrtrsskAVIQLKTTGQILDYCIHDANHLMEVGAFEENVTCNKDVEASEVMHLKKKhsklssnqfgelkstkpsqpekLDLELTAmnngvdglryprgrrsrrnlsvqvsgcsagmnvkvkskdfkgsktpnhsdgkivvdsqpsaENAEMNSRLDKSPREQCEALESPCTSPANCITPVNAASPVCMGNGYIKQSCRKNLAKSCLVKEInrliatepeplsplkdlrkRRDMASIQVLfshhldedIIKQQKKILDRLGasevssitdathfvTDIFVRTRNMLEAIASGKPVVTHLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPASLARarkhpllkdqrvlitpnikpsketISSLIKSVHGQAVERlgrsalkddklpDDLLILSCEEDYEICEPFLEKGAAVYSSELLLNGMVTQKLeyerhrlfvdnvkrtrstiwlrkdghkfhpvtklr
MASKEISIDSCFGQSADLSPDQDAVRNDGSEPKVVEEIDNIHDLKDNETEKGLRNGNSCRVGSSTVRKLFTEDSVSQDKGLPNNGDNAAGGENLLQFPVNDDELAGLSYVDSQEPGEFSEANALTFVEQFIEKNNFVDFDHEVDLgkskggkskPVSTAKGPQSLAKKSNDRSKAGKTGIYDWDDSREDEGGGDLFCRRKDEFFGTAYRAQRSLTEPRQLKKRKFDLDGNGEQQDVHDGITMRSDSRVTFnnikknekkaeeaQLIVEKNLLSELDERLNADSSRGQPDAAVGKTDVSQILNVGPDTQLAAEAMEALLSGEGIANHDANCLQSNskrsaegssrgksksrvslkqsssqkrvrLSGVGVATRQKRKSKSGTEISRCSPDNSVKNFKNISEKCDRELATLNKRRAKSMDEQNSTINGSKNMDRVSSGIIGQRNEDGSLESCQPKEFNRCLRTETQNADHSIKKQKIAKAPSASTPIAFRTRSSKAVIQLKTTGQILDYCIHDANHLMEVGAFEENVTCNKDVEASEVMhlkkkhsklssNQFGELKSTKPSQPEKLDLELTAMNNGVDGLryprgrrsrrNLSVQVSGCSAGMNVKVKSKDFKGSKTPNHSDGKIVVDSQPSAENAEMNSRLDKSPREQCEALESPCTSPANCITPVNAASPVCMGNGYIKQSCRKNLAKSCLVKEINRLIATEPEPLSPLKDLRKRRDMASIQVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPASLARARKHPLLKDQRVLITPNIKPSKETISSLIKSVHGQAVERLGRSAlkddklpddllILSCEEDYEICEPFLEKGAAVYSSELLLNGMVTQKLEYERHRLFVDNVKRTRSTIWLRKDGHKFHPVTKLR
*******************************************************************************************************LAGLSY**********EANALTFVEQFIEKNNFVDFDHEV**************************************************DLFCRRKDEFFGTAYR*******************************************************************************************************************************************************************************************************************************************************************************************KAVIQLKTTGQILDYCIHDANHLMEVGAFEENVTCNKD*********************************************************************************************************************************ANCITPVNAASPVCMGNGYIKQSCRKNLAKSCLVKEINRLIAT****************MASIQVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESIAQVKIHIDEESYLLRD***************************RVLIT************LIK*VH**AV*******L*DDKLPDDLLILSCEEDYEICEPFLEKGAAVYSSELLLNGMVTQKLEYERHRLFVDNVKRTRSTIWLRKDGH*********
*****************************************************************************************************************************FVEQFIE*************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************IQVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPA*L**ARKHPLLKDQRVLITPNIKPSKETISSLIKSVHGQAVERLG*******KLPDDLLILSCEEDYEICEPFLEKGAAVYSSELLLNGMVTQKLEYERHRLF**********************V****
********DSCFGQSADLSPDQDAVRNDGSEPKVVEEIDNIHDLKDNETEKGLRNGNSCRVGSSTVRKLFTEDSVSQDKGLPNNGDNAAGGENLLQFPVNDDELAGLSYVDSQEPGEFSEANALTFVEQFIEKNNFVDFDHEVDLG*****************************GKTGIYDWDDSREDEGGGDLFCRRKDEFFGTAYRAQRSLTEPRQLKKRKFDLDGNGEQQDVHDGITMRSDSRVTFNNIKKNEKKAEEAQLIVEKNLLSELDERLN*************KTDVSQILNVGPDTQLAAEAMEALLSGEGIANHDANCLQS******************************************************PDNSVKNFKNISEKCDRELATLNKRRAKSMDEQNSTINGSKNMDRVSSGIIGQRNEDGSLESCQPKEFNRCLRT**********************PIAFRTRSSKAVIQLKTTGQILDYCIHDANHLMEVGAFEENVTCNKDVEASEVMHLKKKHSKL**************QPEKLDLELTAMNNGVDGLRYPRGRRSRRNLSVQVSGCSAGMNVKVKSKD**********DGKIVVDSQP*************************CTSPANCITPVNAASPVCMGNGYIKQSCRKNLAKSCLVKEINRLIATEPEPLSPLKDLRKRRDMASIQVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPASLARARKHPLLKDQRVLITPNIKPSKETISSLIKSVHGQAVERLGRSALKDDKLPDDLLILSCEEDYEICEPFLEKGAAVYSSELLLNGMVTQKLEYERHRLFVDNVKRTRSTIWLRKDGHKFHPVTKLR
*****ISIDSCFGQSADLSPDQDAVRNDGSEPKVVEEID***********************S***RKLFTEDSVSQDKGL*NNG*NAAGGENLLQFPVNDDELAGLSYVDSQEPGEFSEANALTFVEQFIEKNNFVDFD*******************************RSKAG*TGIYDWDDSREDEGGGDLFCRRK***************************************************************QLI*EKNLLSELDERLNA*S**********KTDVSQILNVGPDTQLAAEAMEALLSGEGI**************************************VRLSGVGVATRQK**SKSGTEI******************C*RELATLNK*RAKSM**QNSTIN***NMDR*S***********************************************STPIAFRTRSSKAVIQLKTTGQILDYCI*****LMEVGAF******************************************************************RRNLSVQVS**************************************************************************************************************************MASIQVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPASLARARKHPLLKDQRVLITPNIKPSKETISSLIKSVHGQAVERLGRSALKDDKLPDDLLILSCEEDYEICEPFLEKGAAVYSSELLLNGMVTQKLEYERHRLFVDNVKRTRSTIWLRKDGHKFHPVT***
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MASKEISIDSCFGQSADLSPDQDAVRNDGSEPKVVEEIDNIHDLKDNETEKGLRNGNSCRVGSSTVRKLFTEDSVSQDKGLPNNGDNAAGGENLLQFPVNDDELAGLSYVDSQEPGEFSEANALTFVEQFIEKNNFVDFDHEVDLGKSKGGKSKPVSTAKGPQSLAKKSNDRSKAGKTGIYDWDDSREDEGGGDLFCRRKDEFFGTAYRAQRSLTEPRQLKKRKFDLDGNGEQQDVHDGITMRSDSRVTFNNIKKNEKKAEEAQLIVEKNLLSELDERLNADSSRGQPDAAVGKTDVSQILNVGPDTQLAAEAMEALLSGEGIANHDANCLQSNSKRSAEGSSRGKSKSRVSLKQSSSQKRVRLSGVGVATRQKRKSKSGTEISRCSPDNSVKNFKNISEKCDRELATLNKRRAKSMDEQNSTINGSKNMDRVSSGIIGQRNEDGSLESCQPKEFNRCLRTETQNADHSIKKQKIAKAPSASTPIAFRTRSSKAVIQLKTTGQILDYCIHDANHLMEVGAFEENVTCNKDVEASEVMHLKKKHSKLSSNQFGELKSTKPSQPEKLDLELTAMNNGVDGLRYPRGRRSRRNLSVQVSGCSAGMNVKVKSKDFKGSKTPNHSDGKIVVDSQPSAENAEMNSRLDKSPREQCEALESPCTSPANCITPVNAASPVCMGNGYIKQSCRKNLAKSCLVKEINRLIATEPEPLSPLKDLRKRRDMASIQVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPASLARARKHPLLKDQRVLITPNIKPSKETISSLIKSVHGQAVERLGRSALKDDKLPDDLLILSCEEDYEICEPFLEKGAAVYSSELLLNGMVTQKLEYERHRLFVDNVKRTRSTIWLRKDGHKFHPVTKLR
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 ?
Query948 2.2.26 [Sep-21-2011]
A0JNA8984 PAX-interacting protein 1 yes no 0.206 0.199 0.333 9e-25
Q6ZW491069 PAX-interacting protein 1 yes no 0.196 0.173 0.326 9e-24
Q6NZQ41056 PAX-interacting protein 1 yes no 0.196 0.176 0.326 1e-23
Q90WJ31256 PAX-interacting protein 1 N/A no 0.207 0.156 0.301 1e-20
Q767L82042 Mediator of DNA damage ch no no 0.207 0.096 0.280 7e-20
Q5U2M81279 Mediator of DNA damage ch no no 0.203 0.150 0.295 9e-19
Q146762089 Mediator of DNA damage ch no no 0.208 0.094 0.279 1e-18
Q5TM682173 Mediator of DNA damage ch no no 0.208 0.091 0.279 2e-18
Q7YR402171 Mediator of DNA damage ch no no 0.208 0.091 0.279 2e-18
Q5PSV91707 Mediator of DNA damage ch no no 0.206 0.114 0.304 2e-17
>sp|A0JNA8|PAXI1_BOVIN PAX-interacting protein 1 OS=Bos taurus GN=PAXIP1 PE=2 SV=1 Back     alignment and function desciption
 Score =  116 bits (290), Expect = 9e-25,   Method: Compositional matrix adjust.
 Identities = 67/201 (33%), Positives = 108/201 (53%), Gaps = 5/201 (2%)

Query: 724 VLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTH 783
           VLF+   +   ++Q  K L  LG     S    TH +     RT   L AI+  K +VT 
Sbjct: 784 VLFTG-FEPVQVQQYIKKLYILGGEVAESAQKCTHLIASKVTRTVKFLTAISVVKHIVTP 842

Query: 784 LWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPASLARARKHPLLKDQRVLITPNIKPS 843
            WLE   + +  +DE++YLLRD + E  F FS+  SL RA   PL K +   ITP I PS
Sbjct: 843 EWLEECFKCQKFVDEQNYLLRDAEAEVLFSFSLEESLRRAHASPLFKAKYFYITPGICPS 902

Query: 844 KETISSLIKSVHGQAVERLG--RSAL--KDDKLPDDLLILSCEEDYEICEPFLEKGAAVY 899
             T+ ++++   G+ + R    R  +  K +K   +++++SCE D  +C  +  +G  V+
Sbjct: 903 LSTMKAIVECAGGKVLSRQPSFRKLMEHKQNKSLSEIVLISCENDLHLCREYFARGIDVH 962

Query: 900 SSELLLNGMVTQKLEYERHRL 920
           ++E +L G++TQ L+YE ++ 
Sbjct: 963 NAEFVLTGVLTQTLDYESYKF 983
Involved in DNA damage response and in transcriptional regulation through histone methyltransferase (HMT) complexes. Plays a role in early development. In DNA damage response is required for cell survival after ionizing radiation. In vitro shown to be involved in the homologous recombination mechanism for the repair of double-strand breaks (DSBs). Its localization to DNA damage foci requires RNF8 and UBE2N. Recruits TP53BP1 to DNA damage foci and, at least in particular repair processes, effective DNA damage response appears to require the association with TP53BP1 phosphorylated by ATM. Together with TP53BP1 regulates ATM association. Recruits PA1 to sites of DNA damage and the PA1:PAXIP1 complex is required for cell survival in response to DNA damage; the function is probbaly independent of MLL-containing histone methyltransferase (HMT) complexes. Promotes ubiquitination of PCNA following UV irradiation and may regulate recruitment of polymerase eta and RAD51 to chromatin after DNA damage. Proposed to be involved in transcriptional regulation by linking MLL-containing histone methyltransferase (HMT) complexes to gene promoters by interacting with promoter-bound transcription factors such as PAX2. Associates with gene promoters that are known to be regulated by MLL2. During immunoglobulin class switching in activated B-cells is involved in trimethylation of histone H3 at 'Lys-4' and in transcription initiation of downstream switch regions at the immunoglobulin heavy-chain (Igh) locus; this function appears to involve the recruitment of MLL-containing HMT complexes.
Bos taurus (taxid: 9913)
>sp|Q6ZW49|PAXI1_HUMAN PAX-interacting protein 1 OS=Homo sapiens GN=PAXIP1 PE=1 SV=2 Back     alignment and function description
>sp|Q6NZQ4|PAXI1_MOUSE PAX-interacting protein 1 OS=Mus musculus GN=Paxip1 PE=1 SV=1 Back     alignment and function description
>sp|Q90WJ3|PAXI1_XENLA PAX-interacting protein 1 OS=Xenopus laevis GN=paxip1 PE=1 SV=1 Back     alignment and function description
>sp|Q767L8|MDC1_PIG Mediator of DNA damage checkpoint protein 1 OS=Sus scrofa GN=MDC1 PE=3 SV=1 Back     alignment and function description
>sp|Q5U2M8|MDC1_RAT Mediator of DNA damage checkpoint protein 1 OS=Rattus norvegicus GN=Mdc1 PE=2 SV=2 Back     alignment and function description
>sp|Q14676|MDC1_HUMAN Mediator of DNA damage checkpoint protein 1 OS=Homo sapiens GN=MDC1 PE=1 SV=3 Back     alignment and function description
>sp|Q5TM68|MDC1_MACMU Mediator of DNA damage checkpoint protein 1 OS=Macaca mulatta GN=MDC1 PE=3 SV=1 Back     alignment and function description
>sp|Q7YR40|MDC1_PANTR Mediator of DNA damage checkpoint protein 1 OS=Pan troglodytes GN=MDC1 PE=3 SV=1 Back     alignment and function description
>sp|Q5PSV9|MDC1_MOUSE Mediator of DNA damage checkpoint protein 1 OS=Mus musculus GN=Mdc1 PE=1 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 ?
Query948
297736928 1055 unnamed protein product [Vitis vinifera] 0.860 0.773 0.461 0.0
224107157 1102 predicted protein [Populus trichocarpa] 0.882 0.759 0.430 0.0
356557839 1147 PREDICTED: uncharacterized protein LOC10 0.910 0.752 0.420 1e-171
449507676 1163 PREDICTED: uncharacterized protein LOC10 0.878 0.716 0.408 1e-156
449470481917 PREDICTED: uncharacterized LOC101214290 0.872 0.901 0.407 1e-154
449454606 1153 PREDICTED: uncharacterized protein LOC10 0.869 0.714 0.406 1e-154
359477306 1294 PREDICTED: uncharacterized protein LOC10 0.361 0.265 0.662 1e-131
357447487 1155 Mediator of DNA damage checkpoint protei 0.321 0.264 0.683 1e-125
255551613 1178 pax transcription activation domain inte 0.363 0.292 0.623 1e-120
1453387951041 BRCT domain-containing DNA repair protei 0.299 0.272 0.610 2e-98
>gi|297736928|emb|CBI26129.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  704 bits (1816), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 419/907 (46%), Positives = 552/907 (60%), Gaps = 91/907 (10%)

Query: 48   ETEKGLRNGNSCRVGSSTVRKLFTEDSVSQDKGLPNNGDNAAGGENLLQFPVNDDELAGL 107
            E  +GLRN   CRV  STVRKLFTED+ ++     NN  +   G +L Q     ++ AGL
Sbjct: 230  EYNEGLRNETKCRVSRSTVRKLFTEDTFAEKSRSTNNIHSNDEGTDLSQLLACGNKSAGL 289

Query: 108  SYVDSQEPGEFSEANALTFVEQFIEKNNFVDFDHEVDLGKSKGGKSKPVSTAKGPQSLAK 167
            SYVDSQEP E S+ANAL FV++F++ N  ++FD EVD GK+   KS  VS+AKGPQSLAK
Sbjct: 290  SYVDSQEPEEASQANALDFVDRFLQVN-MLEFDQEVDHGKTTKTKSITVSSAKGPQSLAK 348

Query: 168  KSNDRSKAGKTGIYDWDDSREDEGGGDLFCRRKDEFFGTAYRAQRSLTEPRQLKKRKFDL 227
             SN R+  G++ I+DWDD+REDEGGG+ FC RK+E F   +  + S +EPR  K R+ DL
Sbjct: 349  ASNRRNTVGQSEIFDWDDNREDEGGGEFFCHRKEELFDHKHHGRISSSEPR--KTRQADL 406

Query: 228  DGNGEQQDVHDGITMRSDSRVTFNNIKKNEKKAEEAQLIVEKNLLSELDERLNADSSRGQ 287
             G+                       + +E + +E +L +   +++     LNA+SS G+
Sbjct: 407  KGS-----------------------QVDEFRNKEEKLKIHHKIMN----FLNAESSGGE 439

Query: 288  PDAAVGKTDVSQILNVGPDTQLAAEAMEALLSGEGIANHDAN-CLQSNSKRSAEGSSRGK 346
             +A     DV  + NVG DTQ+AAEAMEAL  G  + N D +   Q N   +++G  + +
Sbjct: 440  FEATGADMDVPDMPNVGFDTQMAAEAMEALFYGSSLNNGDVHEACQGN--HNSKGLPKRE 497

Query: 347  SKSRVSLKQSSSQKRVRLSGVGVATRQKRKSKS-GTEISRCSPDNSVKNFKNISEKCDRE 405
             K+    K+ S QKR      GV TRQ +K K  G  +S+ S  +     KN+ E+ D E
Sbjct: 498  RKNSACTKEDSFQKRAHPLDSGVITRQSKKMKGIGARLSKES--SGCARSKNVREQIDVE 555

Query: 406  LATLNKRRAKSMDEQNSTINGSKNMDRVSSGIIGQRNEDGSLESCQPKEFNRCLRTETQN 465
                  +R KS  ++     GS+N+ +  S +  +R  +G+LE     E   C    T +
Sbjct: 556  PVKAKPKRTKSNSQERFASRGSENVGKNPSKVTRKRKAEGTLERSHIDEVEGCHGLATSH 615

Query: 466  ADHSIKKQKIAKAPSASTPIAFRTRSSKAVIQLKTTGQILDYCIHDANHLMEVGAFEENV 525
            +  S+KK+ + +     TP+A RTR    V Q +      +    + N+  + G  ++  
Sbjct: 616  SLISVKKRGLQEELGTFTPVACRTRHRMVVNQFERAKIASNDSGEEINNRRKAGPLKDRR 675

Query: 526  TCNKDVEASEVMHLKKKHSKLSSNQFGELKSTKPSQPEKLDLELTAMNNG--VDGLRYPR 583
              +K V+  +V   K++ S   SN  G+L+S K S  E+ D +LTA++NG  +D L  P+
Sbjct: 676  KRSKAVDVCKVSGDKERLSTSGSNGSGKLQSDKLSHHEQSDSKLTAISNGGKMDALSCPK 735

Query: 584  GRRSRRNLSVQVSGCSAGMNVKVKSKDFKGSKTPNHSDGKIVVDSQPSAENAEMNSRLDK 643
              R+ RNL                                            E N+ L  
Sbjct: 736  QSRTHRNL--------------------------------------------EGNAGL-- 749

Query: 644  SPREQCEALESPCTSPANCITPVNAASPVCMGNGYIKQSCRKNLAKSCLVKEINRLIATE 703
              RE C+   S CT+P N +TP NAASPVCMGN Y+KQSC+KNL ++ L+KEIN L  T 
Sbjct: 750  --REMCKPSGSVCTTPVNSVTPTNAASPVCMGNEYVKQSCKKNL-RTSLLKEINNLTDTG 806

Query: 704  PEPLSPLKDLRKRRDMASIQVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDI 763
            P P S +KD R+RR++++++VLFS HLD+DIIKQQKKIL RLG S  SSI+DATHF+TD 
Sbjct: 807  PGPTSAVKDSRRRREISNVRVLFSQHLDDDIIKQQKKILTRLGVSVASSISDATHFITDA 866

Query: 764  FVRTRNMLEAIASGKPVVTHLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPASLARA 823
            FVRTRNMLEAIA GKPVVTHLWLES  Q +  IDE+ Y+LRD KKEKE GFSMP SLARA
Sbjct: 867  FVRTRNMLEAIAYGKPVVTHLWLESCVQARCFIDEKGYILRDAKKEKELGFSMPVSLARA 926

Query: 824  RKHPLL----KDQRVLITPNIKPSKETISSLIKSVHGQAVERLGRSALKDDKLPDDLLIL 879
             +HPLL    +   +LITPN KP KE I+SL+K+V GQ VER+GRS LKD K PDDLLIL
Sbjct: 927  CQHPLLQAISQSYFILITPNTKPGKEIIASLVKAVDGQPVERIGRSVLKDGKFPDDLLIL 986

Query: 880  SCEEDYEICEPFLEKGAAVYSSELLLNGMVTQKLEYERHRLFVDNVKRTRSTIWLRKDGH 939
            SC+EDY +CEP+LEKGAAVYSSELLLNG+VTQKLEYERH+LFVDNVKRTRSTIW+RKDG+
Sbjct: 987  SCDEDYAVCEPYLEKGAAVYSSELLLNGIVTQKLEYERHQLFVDNVKRTRSTIWMRKDGN 1046

Query: 940  KFHPVTK 946
             F PVTK
Sbjct: 1047 HFLPVTK 1053

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224107157|ref|XP_002314392.1| predicted protein [Populus trichocarpa] gi|222863432|gb|EEF00563.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356557839|ref|XP_003547218.1| PREDICTED: uncharacterized protein LOC100817763 [Glycine max] Back     alignment and taxonomy information
>gi|449507676|ref|XP_004163099.1| PREDICTED: uncharacterized protein LOC101229012 [Cucumis sativus] Back     alignment and taxonomy information
>gi|449470481|ref|XP_004152945.1| PREDICTED: uncharacterized LOC101214290 [Cucumis sativus] Back     alignment and taxonomy information
>gi|449454606|ref|XP_004145045.1| PREDICTED: uncharacterized protein LOC101217520 [Cucumis sativus] Back     alignment and taxonomy information
>gi|359477306|ref|XP_002276974.2| PREDICTED: uncharacterized protein LOC100266667 [Vitis vinifera] Back     alignment and taxonomy information
>gi|357447487|ref|XP_003594019.1| Mediator of DNA damage checkpoint protein [Medicago truncatula] gi|355483067|gb|AES64270.1| Mediator of DNA damage checkpoint protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|255551613|ref|XP_002516852.1| pax transcription activation domain interacting protein, putative [Ricinus communis] gi|223543940|gb|EEF45466.1| pax transcription activation domain interacting protein, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|145338795|ref|NP_188785.2| BRCT domain-containing DNA repair protein [Arabidopsis thaliana] gi|11994384|dbj|BAB02343.1| unnamed protein product [Arabidopsis thaliana] gi|83319215|dbj|BAE53712.1| At3g21480 [Arabidopsis thaliana] gi|332642993|gb|AEE76514.1| BRCT domain-containing DNA repair protein [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 ?
Query948
TAIR|locus:20899601041 AT3G21480 "AT3G21480" [Arabido 0.297 0.270 0.6 1.2e-119
TAIR|locus:2125442766 AT4G03130 "AT4G03130" [Arabido 0.311 0.385 0.462 1.1e-72
ZFIN|ZDB-GENE-041010-2141122 paxip1 "PAX interacting (with 0.203 0.172 0.351 1.2e-19
UNIPROTKB|A0JNA8984 PAXIP1 "PAX-interacting protei 0.195 0.188 0.333 6.9e-18
UNIPROTKB|G3MZP91195 PAXIP1 "PAX-interacting protei 0.195 0.154 0.333 1.2e-17
UNIPROTKB|Q6ZW491069 PAXIP1 "PAX-interacting protei 0.195 0.173 0.328 1.9e-17
RGD|1307547994 Paxip1 "PAX interacting (with 0.233 0.222 0.306 1.9e-17
MGI|MGI:18904301056 Paxip1 "PAX interacting (with 0.194 0.174 0.336 1.7e-16
ZFIN|ZDB-GENE-060810-1851914 im:7163673 "im:7163673" [Danio 0.219 0.108 0.303 6.4e-16
RGD|15594681279 Mdc1 "mediator of DNA damage c 0.205 0.152 0.285 1.9e-13
TAIR|locus:2089960 AT3G21480 "AT3G21480" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 838 (300.0 bits), Expect = 1.2e-119, Sum P(4) = 1.2e-119
 Identities = 171/285 (60%), Positives = 207/285 (72%)

Query:   658 SPANCITPVNAASPVCMGNGYIKQSCRKNLAKSCLVKEINRLIATEPEPLSPLKDLRKRR 717
             +PA   TP    SP+CMG+ Y + SC+ +   S   +E   L     EP+S  K  RKRR
Sbjct:   754 TPAKSKTPSTNVSPICMGDEYHRLSCKDSFT-SHTTREFRSLTVPVAEPISETKSTRKRR 812

Query:   718 DMASIQVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASG 777
             D+ SI VLFS HLDED+ K QKKIL R   SE SS+ +ATHF+ D F RTRNMLEAIASG
Sbjct:   813 DLGSICVLFSQHLDEDVTKHQKKILARFDISEASSMKEATHFIADNFTRTRNMLEAIASG 872

Query:   778 KPVVTHLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPASLARARKHPLLKDQRVLIT 837
             KPVVT  WLESI QV I++DE+ Y+LRD+KKEKEF F+M  SLARAR+ PLL+ +RV IT
Sbjct:   873 KPVVTTQWLESIDQVNIYVDEDMYILRDSKKEKEFCFNMGVSLARARQFPLLQGRRVFIT 932

Query:   838 PNIKPSKETISSLIKSVHGQAVERLGRSAXXXXXXXXXXXILSCEEDYEICEPFLEKGAA 897
             PN KP+  TI++L+K+VHG  VERLGRS+           +LSCEED  IC PFLE+GA 
Sbjct:   933 PNTKPALNTITTLVKAVHGLPVERLGRSSLSEDKVPENLLVLSCEEDRAICIPFLERGAE 992

Query:   898 VYSSELLLNGMVTQKLEYERHRLFVDNVKRTRSTIWLRKDGH-KF 941
             VYSSELLLNG+VTQ+LEYER+RLF D+V+RTRSTIW+ KDG  KF
Sbjct:   993 VYSSELLLNGIVTQRLEYERYRLFTDHVRRTRSTIWI-KDGKGKF 1036
GO:0003674 "molecular_function" evidence=ND
GO:0005622 "intracellular" evidence=IEA
GO:0005634 "nucleus" evidence=ISM
GO:0008150 "biological_process" evidence=ND
TAIR|locus:2125442 AT4G03130 "AT4G03130" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-041010-214 paxip1 "PAX interacting (with transcription-activation domain) protein 1" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|A0JNA8 PAXIP1 "PAX-interacting protein 1" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|G3MZP9 PAXIP1 "PAX-interacting protein 1" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q6ZW49 PAXIP1 "PAX-interacting protein 1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
RGD|1307547 Paxip1 "PAX interacting (with transcription-activation domain) protein 1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
MGI|MGI:1890430 Paxip1 "PAX interacting (with transcription-activation domain) protein 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-060810-185 im:7163673 "im:7163673" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
RGD|1559468 Mdc1 "mediator of DNA damage checkpoint 1" [Rattus norvegicus (taxid:10116)] 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 ?

No EC number assignment, probably not an enzyme!

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 ?
Query948
smart0029278 smart00292, BRCT, breast cancer carboxy-terminal d 1e-04
>gnl|CDD|214602 smart00292, BRCT, breast cancer carboxy-terminal domain Back     alignment and domain information 
 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 3/72 (4%)

Query: 719 MASIQVLFSHHLDEDIIKQQKKILDRLGASEVSSIT--DATHFVT-DIFVRTRNMLEAIA 775
                   +   D++   + K++++ LG    SS++    TH +          +L+AIA
Sbjct: 4   FKGKTFYITGSFDKEERDELKELIEALGGKVTSSLSSKTTTHVIVGSPEGGKLELLKAIA 63

Query: 776 SGKPVVTHLWLE 787
            G P+V   WL 
Sbjct: 64  LGIPIVKEEWLL 75

Length = 78

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 948
KOG2043896 consensus Signaling protein SWIFT and related BRCT 100.0
KOG4362684 consensus Transcriptional regulator BRCA1 [Replica 99.5
KOG35481176 consensus DNA damage checkpoint protein RHP9/CRB2/ 99.4
PF0053378 BRCT: BRCA1 C Terminus (BRCT) domain; InterPro: IP 99.11
cd0002772 BRCT Breast Cancer Suppressor Protein (BRCA1), car 99.03
KOG3524 850 consensus Predicted guanine nucleotide exchange fa 99.01
PF1273863 PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2W 98.93
smart0029280 BRCT breast cancer carboxy-terminal domain. 98.93
KOG1929 811 consensus Nucleotide excision repair factor NEF2, 98.87
PF0053378 BRCT: BRCA1 C Terminus (BRCT) domain; InterPro: IP 98.47
KOG3226508 consensus DNA repair protein [Replication, recombi 98.3
smart0029280 BRCT breast cancer carboxy-terminal domain. 98.23
cd0002772 BRCT Breast Cancer Suppressor Protein (BRCA1), car 98.08
PLN03122 815 Poly [ADP-ribose] polymerase; Provisional 97.95
PLN03123 981 poly [ADP-ribose] polymerase; Provisional 97.73
KOG1929 811 consensus Nucleotide excision repair factor NEF2, 97.6
KOG0966881 consensus ATP-dependent DNA ligase IV [Replication 96.83
PF1273863 PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2W 96.69
PLN03122 815 Poly [ADP-ribose] polymerase; Provisional 96.44
KOG0966 881 consensus ATP-dependent DNA ligase IV [Replication 95.95
PRK06195309 DNA polymerase III subunit epsilon; Validated 95.54
PRK07956665 ligA NAD-dependent DNA ligase LigA; Validated 95.4
PRK06063313 DNA polymerase III subunit epsilon; Provisional 95.27
PRK14351689 ligA NAD-dependent DNA ligase LigA; Provisional 95.17
PRK06063313 DNA polymerase III subunit epsilon; Provisional 95.17
KOG3226508 consensus DNA repair protein [Replication, recombi 95.15
KOG0323635 consensus TFIIF-interacting CTD phosphatases, incl 94.85
PLN03123 981 poly [ADP-ribose] polymerase; Provisional 94.81
PRK14350669 ligA NAD-dependent DNA ligase LigA; Provisional 94.74
KOG2481 570 consensus Protein required for normal rRNA process 94.34
TIGR00575652 dnlj DNA ligase, NAD-dependent. The member of this 94.31
KOG2481570 consensus Protein required for normal rRNA process 93.78
COG0272667 Lig NAD-dependent DNA ligase (contains BRCT domain 93.55
PRK06195309 DNA polymerase III subunit epsilon; Validated 93.31
PRK14350669 ligA NAD-dependent DNA ligase LigA; Provisional 93.09
COG5163 591 NOP7 Protein required for biogenesis of the 60S ri 92.56
PRK07956665 ligA NAD-dependent DNA ligase LigA; Validated 91.62
COG5163591 NOP7 Protein required for biogenesis of the 60S ri 91.44
COG0272667 Lig NAD-dependent DNA ligase (contains BRCT domain 91.41
PRK14351689 ligA NAD-dependent DNA ligase LigA; Provisional 91.37
KOG3548 1176 consensus DNA damage checkpoint protein RHP9/CRB2/ 88.57
TIGR00575652 dnlj DNA ligase, NAD-dependent. The member of this 87.69
COG5275276 BRCT domain type II [General function prediction o 86.18
KOG3524 850 consensus Predicted guanine nucleotide exchange fa 83.49
>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 
Probab=100.00  E-value=9.7e-35  Score=347.35  Aligned_cols=266  Identities=35%  Similarity=0.499  Sum_probs=229.8

Q ss_pred             CCcccccccCCCCcccCCcccccccccccccchhhHHHHHhhcCCCCCCCccchhhhhccCCCeEEEEcCCCCHHHHHHH
Q 002240          659 PANCITPVNAASPVCMGNGYIKQSCRKNLAKSCLVKEINRLIATEPEPLSPLKDLRKRRDMASIQVLFSHHLDEDIIKQQ  738 (948)
Q Consensus       659 ~~~~~~~~~~~s~~~~~~~~~k~~c~r~L~rs~~~kEL~~L~~~~~ep~~~~K~sr~rr~ms~vrV~FSGf~dee~~k~L  738 (948)
                      +.....+-..+.|+|+..+|....|   +-..+..+|+.....+..++..      +     .+.++|+++.+...   +
T Consensus       611 ~~~~~~~~~~~~~~~~~~~~~~~sr---~~~t~~~~e~~s~~~~~~e~~~------~-----r~~~lfs~~~~~~~---~  673 (896)
T KOG2043|consen  611 SSSQGESCPDVPTICVRTNYSGASR---LASTPAASELRSSSANLNELAS------K-----RIEVLFSDKNDGKN---Y  673 (896)
T ss_pred             ccccCCCCCCcccccccccccccch---hccccchhhhhhhhhccchhhc------c-----ceeeeeeeccCchh---h
Confidence            3344457788899999999766555   5577788888877666666664      1     19999999987653   5


Q ss_pred             HHHHHHcCCEEeccCCCceEEEeCCCCChHHHHHHHhCCCCeecHHHHHHHHHhCCCCCCCCcccCCchhhhhcCCChhH
Q 002240          739 KKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPA  818 (948)
Q Consensus       739 KKiIk~LGGsVvddisd~THLVA~k~~RT~KfL~AIA~GipIVSp~WLedClkaGk~VDEe~YeL~D~e~Eke~gfsL~~  818 (948)
                      +..++.|||.++.++.++||+|+++++||.|||+||++|+|||+++||.+|++.|.|+||++|+|.|.+.|++|||+|..
T Consensus       674 k~~~k~lg~s~~ss~~e~Th~i~~rirRT~k~Leai~~G~~ivT~~wL~s~~k~g~~~dek~yil~D~ekEk~~gf~l~s  753 (896)
T KOG2043|consen  674 KLAKKFLGGSVASSDSEATHFIADRIRRTLKFLEAISSGKPLVTPQWLVSSLKSGEKLDEKPYILHDEEKEKEFGFRLKS  753 (896)
T ss_pred             hhHHhhccceeecccccceeeeehhhhccHHHHhhhccCCcccchHHHHHHhhccccccCccccccCHHHHhccCcchhh
Confidence            67788899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcccCCCCCCceEEEeCCCCCCHHHHHHHHHhCCcEEEeccCcccccC----CCCCCceEEEecCCchhccHHHhhc
Q 002240          819 SLARARKHPLLKDQRVLITPNIKPSKETISSLIKSVHGQAVERLGRSALKD----DKLPDDLLILSCEEDYEICEPFLEK  894 (948)
Q Consensus       819 SLarArk~~LF~G~rFyIT~~vkPskd~Lk~LIeaaGGkVVe~~prs~lKD----~~~pd~lIIISceeD~~~~~~llk~  894 (948)
                      +|.||+..++|.|+.||+++.+.|+...+.+||+++||.|+...+......    ...+.++++|+|++|...|..++..
T Consensus       754 sl~RAr~~plL~g~~v~vtp~v~p~~~~v~eiie~~ggnvv~~~p~~~~~~k~~l~~~~~~~v~itc~~D~~~~~~fl~~  833 (896)
T KOG2043|consen  754 SLLRARADPLLEGINVHVTPSVTPSPKTVVEIIEISGGNVVSDSPKGVYTKKIVLSAHDLDVVGITCSEDRTFCDNFLDN  833 (896)
T ss_pred             HHHHhhcchhhcCceEEeccccccCcchhHHHHhhcCcceecccCccceecccccccCcccceeeccccccccccccccc
Confidence            999999999999999999999999999999999999999998877532111    1123468999999999999999999


Q ss_pred             CCe---EechhHHHHH-HhcCccCcccCccccccccccccccceeccCCce
Q 002240          895 GAA---VYSSELLLNG-MVTQKLEYERHRLFVDNVKRTRSTIWLRKDGHKF  941 (948)
Q Consensus       895 Gi~---VVSsEWILdS-IL~QkLE~E~y~Lf~d~v~~trs~~w~~~~~~~f  941 (948)
                      +.+   +|+++++|.. +..|..++..|+++-+++..+..+.|.++..-+|
T Consensus       834 ~~~~~~i~~~~~~l~~~~v~q~~~~~~~ri~l~~v~~~~~~~~~~~~~s~~  884 (896)
T KOG2043|consen  834 GLEQENIFSPEYVLKGGLVQQQEPSPALRIPLDNVTTTKDTEQNRCVESIF  884 (896)
T ss_pred             ccccccccchHhhhhccceeecccccceeccccccccccccccccccccch
Confidence            998   9999999998 4456679999999999999999999999765443

>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription] Back     alignment and domain information
>KOG3548 consensus DNA damage checkpoint protein RHP9/CRB2/53BP1 [Replication, recombination and repair] 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
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain Back     alignment and domain information
>KOG3524 consensus Predicted guanine nucleotide exchange factor (PEBBLE) [Signal transduction mechanisms] 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
>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
>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
>smart00292 BRCT breast cancer carboxy-terminal domain Back     alignment and domain information
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain Back     alignment and domain information
>PLN03122 Poly [ADP-ribose] polymerase; Provisional Back     alignment and domain information
>PLN03123 poly [ADP-ribose] polymerase; Provisional Back     alignment and domain information
>KOG1929 consensus Nucleotide excision repair factor NEF2, RAD4/CUT5 component [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
>PF12738 PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2WT8_C 3EF1_A 3EF0_A Back     alignment and domain information
>PLN03122 Poly [ADP-ribose] polymerase; Provisional Back     alignment and domain information
>KOG0966 consensus ATP-dependent DNA ligase IV [Replication, recombination and repair] Back     alignment and domain information
>PRK06195 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated Back     alignment and domain information
>PRK06063 DNA polymerase III subunit epsilon; Provisional 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
>KOG3226 consensus DNA repair protein [Replication, recombination and repair] Back     alignment and domain information
>KOG0323 consensus TFIIF-interacting CTD phosphatases, including NLI-interacting factor [Transcription] Back     alignment and domain information
>PLN03123 poly [ADP-ribose] polymerase; Provisional Back     alignment and domain information
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional Back     alignment and domain information
>KOG2481 consensus Protein required for normal rRNA processing [RNA processing and modification] Back     alignment and domain information
>TIGR00575 dnlj DNA ligase, NAD-dependent 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
>PRK06195 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK14350 ligA NAD-dependent DNA ligase LigA; 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
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated 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
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional Back     alignment and domain information
>KOG3548 consensus DNA damage checkpoint protein RHP9/CRB2/53BP1 [Replication, recombination and repair] 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
>KOG3524 consensus Predicted guanine nucleotide exchange factor (PEBBLE) [Signal transduction mechanisms] 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 ?
Query948
3sqd_A219 Crystal Structure Of Human Ptip Brct56-Gamma H2ax C 8e-23
3k05_A200 The Crystal Structure Of Mdc1 Brct T2067d In Comple 2e-18
2ado_A196 Crystal Structure Of The Brct Repeat Region From Th 3e-18
2etx_A209 Crystal Structure Of Mdc1 Tandem Brct Domains Lengt 5e-18
2azm_A207 Crystal Structure Of The Mdc1 Brct Repeat In Comple 3e-14
3l40_A220 Crystal Structure Of S. Pombe Brc1 Brct5-Brct6 Doma 3e-09
>pdb|3SQD|A Chain A, Crystal Structure Of Human Ptip Brct56-Gamma H2ax Complex Length = 219 Back     alignment and structure 
Iteration: 1

 Score =  105 bits (263), Expect = 8e-23,   Method: Compositional matrix adjust.
 Identities = 62/190 (32%), Positives = 96/190 (50%), Gaps = 4/190 (2%)
Query: 735 IKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESIAQVKI 794
           ++Q  K L  LG     S    TH +     RT   L AI+  K +VT  WLE   + + 
Sbjct: 29  VQQYIKKLYILGGEVAESAQKCTHLIASKVTRTVKFLTAISVVKHIVTPEWLEECFRCQK 88
Query: 795 HIDEESYLLRDTKKEKEFGFSMPASLARARKHPLLKDQRVLITPNIKPSKETISSLIKSV 854
            IDE++Y+LRD + E  F FS+  SL RA   PL K +   ITP I PS  T+ ++++  
Sbjct: 89  FIDEQNYILRDAEAEVLFSFSLEESLKRAHVSPLFKAKYFYITPGICPSLSTMKAIVECA 148
Query: 855 HGQAVER---LGRSAXXXXXXXXXXXIL-SCEEDYEICEPFLEKGAAVYSSELLLNGMVT 910
            G+ + +     +             IL SCE D  +C  +  +G  V+++E +L G++T
Sbjct: 149 GGKVLSKQPSFRKLMEHKQNSSLSEIILISCENDLHLCREYFARGIDVHNAEFVLTGVLT 208
Query: 911 QKLEYERHRL 920
           Q L+YE ++ 
Sbjct: 209 QTLDYESYKF 218
>pdb|3K05|A Chain A, The Crystal Structure Of Mdc1 Brct T2067d In Complex With A Minimal Recognition Tetrapeptide With An Amidated C-Terminus Length = 200 Back     alignment and structure
>pdb|2ADO|A Chain A, Crystal Structure Of The Brct Repeat Region From The Mediator Of Dna Damage Checkpoint Protein 1, Mdc1 Length = 196 Back     alignment and structure
>pdb|2ETX|A Chain A, Crystal Structure Of Mdc1 Tandem Brct Domains Length = 209 Back     alignment and structure
>pdb|2AZM|A Chain A, Crystal Structure Of The Mdc1 Brct Repeat In Complex With The Histone Tail Of Gamma-H2ax Length = 207 Back     alignment and structure
>pdb|3L40|A Chain A, Crystal Structure Of S. Pombe Brc1 Brct5-Brct6 Domains Length = 220 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 ?
Query948
3sqd_A219 PAX-interacting protein 1; tandem BRCT domains, ce 1e-55
2etx_A209 Mediator of DNA damage checkpoint protein 1; tande 1e-50
3l41_A220 BRCT-containing protein 1; BRC1, BRCT domain, tand 3e-45
1kzy_C259 Tumor suppressor P53-binding protein 1; tandem-BRC 6e-27
3al2_A235 DNA topoisomerase 2-binding protein 1; BRCT domain 3e-22
2vxb_A241 DNA repair protein RHP9; BRCT, nucleus, cell cycle 5e-21
1t15_A214 Breast cancer type 1 susceptibility protein; prote 1e-20
1l0b_A229 BRCA1; TANDEM-BRCT, three-helix bundle, unknown fu 1e-20
2nte_A210 BARD-1, BRCA1-associated ring domain protein 1; BR 2e-19
3u3z_A199 Microcephalin; DNA repair, cell cycle regulation, 5e-18
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-11
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-04
3l3e_A107 DNA topoisomerase 2-binding protein 1; BRCT domain 5e-07
3pa6_A107 Microcephalin; BRCT domain, cell cycle; HET: MSE; 1e-06
2d8m_A129 DNA-repair protein XRCC1; parallel beta-sheet, DNA 3e-05
3olc_X298 DNA topoisomerase 2-binding protein 1; BRCT domain 1e-04
3olc_X298 DNA topoisomerase 2-binding protein 1; BRCT domain 2e-04
3l46_A112 Protein ECT2; alternative splicing, guanine-nucleo 2e-04
>3sqd_A PAX-interacting protein 1; tandem BRCT domains, cell cycle; HET: SEP; 2.15A {Homo sapiens} Length = 219 Back     alignment and structure
 Score =  190 bits (485), Expect = 1e-55
 Identities = 65/216 (30%), Positives = 107/216 (49%), Gaps = 5/216 (2%)

Query: 709 PLKDLRKRRDMASIQVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTR 768
                 K     +  VLF+   +   ++Q  K L  LG     S    TH +     RT 
Sbjct: 4   HHHHHMKLTPELTPFVLFTG-FEPVQVQQYIKKLYILGGEVAESAQKCTHLIASKVTRTV 62

Query: 769 NMLEAIASGKPVVTHLWLESIAQVKIHIDEESYLLRDTKKEKEFGFSMPASLARARKHPL 828
             L AI+  K +VT  WLE   + +  IDE++Y+LRD + E  F FS+  SL RA   PL
Sbjct: 63  KFLTAISVVKHIVTPEWLEECFRCQKFIDEQNYILRDAEAEVLFSFSLEESLKRAHVSPL 122

Query: 829 LKDQRVLITPNIKPSKETISSLIKSVHGQAVERLGRSA----LKDDKLPDDLLILSCEED 884
            K +   ITP I PS  T+ ++++   G+ + +          K +    +++++SCE D
Sbjct: 123 FKAKYFYITPGICPSLSTMKAIVECAGGKVLSKQPSFRKLMEHKQNSSLSEIILISCEND 182

Query: 885 YEICEPFLEKGAAVYSSELLLNGMVTQKLEYERHRL 920
             +C  +  +G  V+++E +L G++TQ L+YE ++ 
Sbjct: 183 LHLCREYFARGIDVHNAEFVLTGVLTQTLDYESYKF 218
>2etx_A Mediator of DNA damage checkpoint protein 1; tandem BRCT domains histone gamma-H2AX, cell cycle; 1.33A {Homo sapiens} PDB: 2azm_A* 3k05_A* 2ado_A Length = 209 Back     alignment and structure
>3l41_A BRCT-containing protein 1; BRC1, BRCT domain, tandem BRCT repeat, phosphoserine binding domain, DNA repair, cell division, mitosis; HET: SEP; 1.45A {Schizosaccharomyces pombe} PDB: 3l40_A* Length = 220 Back     alignment and structure
>1kzy_C Tumor suppressor P53-binding protein 1; tandem-BRCT and linker complexed with non-BRCT protein, three-helix bundle, parallel beta sheet; 2.50A {Homo sapiens} SCOP: c.15.1.4 c.15.1.4 PDB: 1gzh_B Length = 259 Back     alignment and structure
>3al2_A DNA topoisomerase 2-binding protein 1; BRCT domain, protein binding, DNA binding protein; HET: DNA MSE; 2.00A {Homo sapiens} PDB: 3al3_A* Length = 235 Back     alignment and structure
>2vxb_A DNA repair protein RHP9; BRCT, nucleus, cell cycle, DNA damage, DNA replication inhibitor, phosphoprotein, checkpoint signalling; HET: DNA; 2.3A {Schizosaccharomyces pombe} PDB: 2vxc_A* Length = 241 Back     alignment and structure
>1t15_A Breast cancer type 1 susceptibility protein; protein-peptide complex, antitumor protein; HET: SEP; 1.85A {Homo sapiens} SCOP: c.15.1.3 c.15.1.3 PDB: 1jnx_X* 1t29_A* 1t2v_A* 1y98_A* 3coj_X* 3k0h_A* 3k0k_A* 3pxe_A* 3pxb_A 3pxc_X 1t2u_A 1n5o_X 3pxa_A 3k15_A* 3k16_A* 3pxd_A 2ing_X 1oqa_A Length = 214 Back     alignment and structure
>1l0b_A BRCA1; TANDEM-BRCT, three-helix bundle, unknown function; 2.30A {Rattus norvegicus} SCOP: c.15.1.3 c.15.1.3 Length = 229 Back     alignment and structure
>2nte_A BARD-1, BRCA1-associated ring domain protein 1; BRCT, ring finger, zinc-binding protein, ubiquitin LI antitumor protein; 1.90A {Homo sapiens} PDB: 3fa2_A 2r1z_A Length = 210 Back     alignment and structure
>3u3z_A Microcephalin; DNA repair, cell cycle regulation, cell cycle; HET: SEP PTR; 1.50A {Homo sapiens} PDB: 3szm_A* 3t1n_A* 3sht_A 3shv_A* Length = 199 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
>3pa6_A Microcephalin; BRCT domain, cell cycle; HET: MSE; 1.50A {Homo sapiens} PDB: 3ktf_A* 2wt8_A* Length = 107 Back     alignment and structure
>2d8m_A DNA-repair protein XRCC1; parallel beta-sheet, DNA ligase III, poly(ADP-ribose) polymerase-1, DNA polymerase beta, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 129 Back     alignment and structure
>3olc_X DNA topoisomerase 2-binding protein 1; BRCT domain, DNA repair, RAD9, DNA binding protein; HET: DNA; 2.40A {Homo sapiens} PDB: 2xnk_A* 2xnh_A* Length = 298 Back     alignment and structure
>3olc_X DNA topoisomerase 2-binding protein 1; BRCT domain, DNA repair, RAD9, DNA binding protein; HET: DNA; 2.40A {Homo sapiens} PDB: 2xnk_A* 2xnh_A* Length = 298 Back     alignment and structure
>3l46_A Protein ECT2; alternative splicing, guanine-nucleotide releasing factor, phosphoprotein, polymorphism, proto-oncogene, structural genomics; 1.48A {Homo sapiens} Length = 112 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query948
3sqd_A219 PAX-interacting protein 1; tandem BRCT domains, ce 100.0
2etx_A209 Mediator of DNA damage checkpoint protein 1; tande 100.0
3l41_A220 BRCT-containing protein 1; BRC1, BRCT domain, tand 100.0
3al2_A235 DNA topoisomerase 2-binding protein 1; BRCT domain 99.97
1l0b_A229 BRCA1; TANDEM-BRCT, three-helix bundle, unknown fu 99.96
3u3z_A199 Microcephalin; DNA repair, cell cycle regulation, 99.96
1t15_A214 Breast cancer type 1 susceptibility protein; prote 99.95
2nte_A210 BARD-1, BRCA1-associated ring domain protein 1; BR 99.94
1kzy_C259 Tumor suppressor P53-binding protein 1; tandem-BRC 99.92
3olc_X298 DNA topoisomerase 2-binding protein 1; BRCT domain 99.89
2vxb_A241 DNA repair protein RHP9; BRCT, nucleus, cell cycle 99.85
3t7k_A256 RTT107, regulator of TY1 transposition protein 107 99.77
3ii6_X263 DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alter 99.59
3l3e_A107 DNA topoisomerase 2-binding protein 1; BRCT domain 99.5
1z56_C264 DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA 99.46
2d8m_A129 DNA-repair protein XRCC1; parallel beta-sheet, DNA 99.44
3l46_A112 Protein ECT2; alternative splicing, guanine-nucleo 99.43
2cou_A109 ECT2 protein; BRCT domain, RHO GTPase, structural 99.39
4id3_A92 DNA repair protein REV1; BRCT domain, protein bind 99.35
2ebw_A97 DNA repair protein REV1; A/B/A 3 layers, parallel 99.29
1wf6_A132 Similar to S.pombe -RAD4+/CUT5+product (A40727); B 99.24
3pa6_A107 Microcephalin; BRCT domain, cell cycle; HET: MSE; 99.13
3ef0_A372 RNA polymerase II subunit A C-terminal domain phos 99.13
3ef1_A442 RNA polymerase II subunit A C-terminal domain phos 99.12
3olc_X298 DNA topoisomerase 2-binding protein 1; BRCT domain 99.12
3pc6_A104 DNA repair protein XRCC1; BRCT domain, protein:pro 98.98
2ebw_A97 DNA repair protein REV1; A/B/A 3 layers, parallel 98.85
4id3_A92 DNA repair protein REV1; BRCT domain, protein bind 98.79
3huf_A325 DNA repair and telomere maintenance protein NBS1; 98.71
2d8m_A129 DNA-repair protein XRCC1; parallel beta-sheet, DNA 98.67
3l46_A112 Protein ECT2; alternative splicing, guanine-nucleo 98.54
2cou_A109 ECT2 protein; BRCT domain, RHO GTPase, structural 98.46
2jw5_A106 DNA polymerase lambda; BRCT domain, family X polym 98.44
3l3e_A107 DNA topoisomerase 2-binding protein 1; BRCT domain 98.43
1z56_C264 DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA 98.36
2ep8_A100 Pescadillo homolog 1; A/B/A 3 layers, nucleolus, r 98.36
3ii6_X 263 DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alter 98.32
2k6g_A109 Replication factor C subunit 1; protein, BRCT, DNA 98.3
2coe_A120 Deoxynucleotidyltransferase, terminal variant; BRC 98.29
2ebu_A112 Replication factor C subunit 1; A/B/A 3 layers, pa 98.29
1l7b_A92 DNA ligase; BRCT, autostructure, structural genomi 98.28
3pc6_A104 DNA repair protein XRCC1; BRCT domain, protein:pro 98.28
1kzy_C259 Tumor suppressor P53-binding protein 1; tandem-BRC 98.15
1wf6_A132 Similar to S.pombe -RAD4+/CUT5+product (A40727); B 98.15
2vxb_A241 DNA repair protein RHP9; BRCT, nucleus, cell cycle 98.11
3pa6_A107 Microcephalin; BRCT domain, cell cycle; HET: MSE; 98.01
1l0b_A229 BRCA1; TANDEM-BRCT, three-helix bundle, unknown fu 98.0
3u3z_A199 Microcephalin; DNA repair, cell cycle regulation, 97.99
3pc7_A88 DNA ligase 3; DNA repair, BRCT domain, protein:pro 97.98
2cok_A113 Poly [ADP-ribose] polymerase-1; BRCT domain, DNA r 97.9
1t15_A214 Breast cancer type 1 susceptibility protein; prote 97.85
2ep8_A100 Pescadillo homolog 1; A/B/A 3 layers, nucleolus, r 97.85
3pc7_A88 DNA ligase 3; DNA repair, BRCT domain, protein:pro 97.76
2l42_A106 DNA-binding protein RAP1; BRCT domain, protein bin 97.72
2dun_A133 POL MU, DNA polymerase MU; layers A/B/A, parallel 97.71
2etx_A209 Mediator of DNA damage checkpoint protein 1; tande 97.66
2nte_A210 BARD-1, BRCA1-associated ring domain protein 1; BR 97.6
1l7b_A92 DNA ligase; BRCT, autostructure, structural genomi 97.58
3ef0_A372 RNA polymerase II subunit A C-terminal domain phos 97.56
3ef1_A442 RNA polymerase II subunit A C-terminal domain phos 97.49
2cok_A113 Poly [ADP-ribose] polymerase-1; BRCT domain, DNA r 97.44
2k6g_A109 Replication factor C subunit 1; protein, BRCT, DNA 97.39
2ebu_A112 Replication factor C subunit 1; A/B/A 3 layers, pa 97.28
3sqd_A219 PAX-interacting protein 1; tandem BRCT domains, ce 96.89
3al2_A235 DNA topoisomerase 2-binding protein 1; BRCT domain 96.69
2coe_A120 Deoxynucleotidyltransferase, terminal variant; BRC 96.68
2jw5_A106 DNA polymerase lambda; BRCT domain, family X polym 96.55
4gns_A290 Chitin biosynthesis protein CHS5; FN3, BRCT, tetra 96.54
2l42_A106 DNA-binding protein RAP1; BRCT domain, protein bin 95.98
2dun_A133 POL MU, DNA polymerase MU; layers A/B/A, parallel 95.81
1dgs_A667 DNA ligase; AMP complex, NAD+-dependent; HET: DNA 95.54
2owo_A671 DNA ligase; protein-DNA complex, ligase-DNA comple 95.19
3l41_A 220 BRCT-containing protein 1; BRC1, BRCT domain, tand 94.04
1dgs_A667 DNA ligase; AMP complex, NAD+-dependent; HET: DNA 89.74
2owo_A671 DNA ligase; protein-DNA complex, ligase-DNA comple 88.34
>3sqd_A PAX-interacting protein 1; tandem BRCT domains, cell cycle; HET: SEP; 2.15A {Homo sapiens} Back     alignment and structure
Probab=100.00  E-value=5.6e-40  Score=337.83  Aligned_cols=201  Identities=32%  Similarity=0.536  Sum_probs=184.1

Q ss_pred             CCCeEEEEcCCCCHHHHHHHHHHHHHcCCEEeccCCCceEEEeCCCCChHHHHHHHhCCCCeecHHHHHHHHHhCCCCCC
Q 002240          719 MASIQVLFSHHLDEDIIKQQKKILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESIAQVKIHIDE  798 (948)
Q Consensus       719 ms~vrV~FSGf~dee~~k~LKKiIk~LGGsVvddisd~THLVA~k~~RT~KfL~AIA~GipIVSp~WLedClkaGk~VDE  798 (948)
                      +.+++|+|||+.+.+ .+.+.++|+.|||.|++++.+|||||++.+.||.|||+|++.|+|||+++||.+|+++|+++||
T Consensus        14 ~~~~~i~~SG~~~~~-~~~l~~~i~~lGg~v~~~~~~~THLI~~~~~rT~K~l~A~~~g~~IVs~~Wl~~c~~~~~~l~e   92 (219)
T 3sqd_A           14 ELTPFVLFTGFEPVQ-VQQYIKKLYILGGEVAESAQKCTHLIASKVTRTVKFLTAISVVKHIVTPEWLEECFRCQKFIDE   92 (219)
T ss_dssp             GGCCEEEECSCCHHH-HHHHHHHHHHTTCEECSSGGGCSEEECSSCCCCHHHHHHTTTCSEEECHHHHHHHHHHTSCCCS
T ss_pred             CCCeEEEEeCCChHH-HHHHHHHHHHCCCEEeCCCCCceEEEECCCCCCHHHHHHHHcCCCEecHHHHHHHHHcCCCCCh
Confidence            568999999998654 4678999999999999999899999999999999999999999999999999999999999999


Q ss_pred             CCcccCCchhhhhcCCChhHHhhhcccCCCCCCceEEEeCCCCCCHHHHHHHHHhCCcEEEeccCcc--cc--cCCCCCC
Q 002240          799 ESYLLRDTKKEKEFGFSMPASLARARKHPLLKDQRVLITPNIKPSKETISSLIKSVHGQAVERLGRS--AL--KDDKLPD  874 (948)
Q Consensus       799 e~YeL~D~e~Eke~gfsL~~SLarArk~~LF~G~rFyIT~~vkPskd~Lk~LIeaaGGkVVe~~prs--~l--KD~~~pd  874 (948)
                      ++|++.|.++|+.|||++..++.++++.+||+|++|||++.+.|+++.|++||+++||+|+...|..  ++  +++..+.
T Consensus        93 ~~y~l~d~~~e~~~~~~l~~~l~ra~~~~LF~G~~f~it~~~~~~~~~l~~lI~~~GG~v~~~~p~~~~~~~~~~~~~~~  172 (219)
T 3sqd_A           93 QNYILRDAEAEVLFSFSLEESLKRAHVSPLFKAKYFYITPGICPSLSTMKAIVECAGGKVLSKQPSFRKLMEHKQNSSLS  172 (219)
T ss_dssp             GGGBCCCHHHHHHTTCCHHHHHHHHHHSCTTTTEEEEECTTCSSCHHHHHHHHHHTTCEEESSCCCHHHHHHHHHCTTSC
T ss_pred             HhccCCCchhhhhcCCChHHHhhhhccccccCCcEEEEeCCCCCCHHHHHHHHHHCCCEEECCCCchHHhhhhhcccCCC
Confidence            9999999999999999999999999889999999999999999999999999999999999987643  11  1222334


Q ss_pred             ceEEEecCCchhccHHHhhcCCeEechhHHHHHHhcCccCcccCcc
Q 002240          875 DLLILSCEEDYEICEPFLEKGAAVYSSELLLNGMVTQKLEYERHRL  920 (948)
Q Consensus       875 ~lIIISceeD~~~~~~llk~Gi~VVSsEWILdSIL~QkLE~E~y~L  920 (948)
                      +++||+|++|...|..+.+.|++||++|||++||++|+|||+.|+|
T Consensus       173 ~~ivis~~~d~~~~~~~~~~~~~v~s~E~il~~Il~q~ld~~~~~~  218 (219)
T 3sqd_A          173 EIILISCENDLHLCREYFARGIDVHNAEFVLTGVLTQTLDYESYKF  218 (219)
T ss_dssp             EEEEEECGGGGGGGHHHHHTTCCCEETHHHHHHHHHTCCCTTTSBC
T ss_pred             CEEEEecccHHHHHHHHHHCCCcEEeHHHHHHHHHheeecchhccc
Confidence            6899999999999999999999999999999999999999999987
>2etx_A Mediator of DNA damage checkpoint protein 1; tandem BRCT domains histone gamma-H2AX, cell cycle; 1.33A {Homo sapiens} PDB: 2azm_A* 3k05_A* 2ado_A Back     alignment and structure
>3l41_A BRCT-containing protein 1; BRC1, BRCT domain, tandem BRCT repeat, phosphoserine binding domain, DNA repair, cell division, mitosis; HET: SEP; 1.45A {Schizosaccharomyces pombe} PDB: 3l40_A* Back     alignment and structure
>3al2_A DNA topoisomerase 2-binding protein 1; BRCT domain, protein binding, DNA binding protein; HET: DNA MSE; 2.00A {Homo sapiens} PDB: 3al3_A* Back     alignment and structure
>1l0b_A BRCA1; TANDEM-BRCT, three-helix bundle, unknown function; 2.30A {Rattus norvegicus} SCOP: c.15.1.3 c.15.1.3 Back     alignment and structure
>3u3z_A Microcephalin; DNA repair, cell cycle regulation, cell cycle; HET: SEP PTR; 1.50A {Homo sapiens} PDB: 3szm_A* 3t1n_A* 3sht_A 3shv_A* Back     alignment and structure
>1t15_A Breast cancer type 1 susceptibility protein; protein-peptide complex, antitumor protein; HET: SEP; 1.85A {Homo sapiens} SCOP: c.15.1.3 c.15.1.3 PDB: 1jnx_X* 1t29_A* 1t2v_A* 1y98_A* 3coj_X* 3k0h_A* 3k0k_A* 3pxe_A* 3pxb_A 3pxc_X 1t2u_A 1n5o_X 3pxa_A 3k15_A* 3k16_A* 3pxd_A 2ing_X 1oqa_A Back     alignment and structure
>2nte_A BARD-1, BRCA1-associated ring domain protein 1; BRCT, ring finger, zinc-binding protein, ubiquitin LI antitumor protein; 1.90A {Homo sapiens} PDB: 3fa2_A 2r1z_A Back     alignment and structure
>1kzy_C Tumor suppressor P53-binding protein 1; tandem-BRCT and linker complexed with non-BRCT protein, three-helix bundle, parallel beta sheet; 2.50A {Homo sapiens} SCOP: c.15.1.4 c.15.1.4 PDB: 1gzh_B Back     alignment and structure
>3olc_X DNA topoisomerase 2-binding protein 1; BRCT domain, DNA repair, RAD9, DNA binding protein; HET: DNA; 2.40A {Homo sapiens} PDB: 2xnk_A* 2xnh_A* Back     alignment and structure
>2vxb_A DNA repair protein RHP9; BRCT, nucleus, cell cycle, DNA damage, DNA replication inhibitor, phosphoprotein, checkpoint signalling; HET: DNA; 2.3A {Schizosaccharomyces pombe} PDB: 2vxc_A* Back     alignment and structure
>3t7k_A RTT107, regulator of TY1 transposition protein 107; BRCT, DNA repair, phospho-peptide, protein binding; HET: SEP; 2.03A {Saccharomyces cerevisiae} PDB: 3t7j_A* 3t7i_A Back     alignment and structure
>3ii6_X DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alternative splicing, coiled coil, DNA damage, DNA recombination, isopeptide bond, nucleus; HET: DNA; 2.40A {Homo sapiens} PDB: 2e2w_A* Back     alignment and structure
>1z56_C DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA ligase, coiled-coil; HET: DNA; 3.92A {Saccharomyces cerevisiae} Back     alignment and structure
>2d8m_A DNA-repair protein XRCC1; parallel beta-sheet, DNA ligase III, poly(ADP-ribose) polymerase-1, DNA polymerase beta, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3l46_A Protein ECT2; alternative splicing, guanine-nucleotide releasing factor, phosphoprotein, polymorphism, proto-oncogene, structural genomics; 1.48A {Homo sapiens} Back     alignment and structure
>2cou_A ECT2 protein; BRCT domain, RHO GTPase, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Back     alignment and structure
>4id3_A DNA repair protein REV1; BRCT domain, protein binding; HET: DNA; 1.97A {Saccharomyces cerevisiae S288C} Back     alignment and structure
>2ebw_A DNA repair protein REV1; A/B/A 3 layers, parallel beta-sheet, DNA replication, translession synthesis, TLS, DNA polymerase zeta, PCNA; HET: DNA; NMR {Homo sapiens} Back     alignment and structure
>1wf6_A Similar to S.pombe -RAD4+/CUT5+product (A40727); BRCT, topoisomerase II binding protein, checkpoint; NMR {Homo sapiens} SCOP: c.15.1.5 Back     alignment and structure
>3pa6_A Microcephalin; BRCT domain, cell cycle; HET: MSE; 1.50A {Homo sapiens} PDB: 3ktf_A* 2wt8_A* Back     alignment and structure
>3ef0_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD, FCPH, BRCT, hydrolase, ALF4, transition state analog, cobalt, magnesium; 2.10A {Schizosaccharomyces pombe} Back     alignment and structure
>3ef1_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD, FCPH, BRCT, hydrolase, BEF3, acylphosphate analog, cobalt, magnesium; HET: BFD; 2.15A {Schizosaccharomyces pombe} Back     alignment and structure
>3olc_X DNA topoisomerase 2-binding protein 1; BRCT domain, DNA repair, RAD9, DNA binding protein; HET: DNA; 2.40A {Homo sapiens} PDB: 2xnk_A* 2xnh_A* Back     alignment and structure
>3pc6_A DNA repair protein XRCC1; BRCT domain, protein:protein interactions, DNA L III-alpha BRCT2 domain, DNA binding protein; HET: DNA; 1.90A {Mus musculus} SCOP: c.15.1.1 PDB: 3pc8_A* 3qvg_B* 1cdz_A Back     alignment and structure
>2ebw_A DNA repair protein REV1; A/B/A 3 layers, parallel beta-sheet, DNA replication, translession synthesis, TLS, DNA polymerase zeta, PCNA; HET: DNA; NMR {Homo sapiens} Back     alignment and structure
>4id3_A DNA repair protein REV1; BRCT domain, protein binding; HET: DNA; 1.97A {Saccharomyces cerevisiae S288C} Back     alignment and structure
>3huf_A DNA repair and telomere maintenance protein NBS1; NBS1, FHA domain, BRCT domain, phosphoprotein binding, phosp binding, DNA repair; HET: DNA TPO; 2.15A {Schizosaccharomyces pombe} PDB: 3hue_A* 3i0m_A* 3i0n_A* Back     alignment and structure
>2d8m_A DNA-repair protein XRCC1; parallel beta-sheet, DNA ligase III, poly(ADP-ribose) polymerase-1, DNA polymerase beta, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3l46_A Protein ECT2; alternative splicing, guanine-nucleotide releasing factor, phosphoprotein, polymorphism, proto-oncogene, structural genomics; 1.48A {Homo sapiens} Back     alignment and structure
>2cou_A ECT2 protein; BRCT domain, RHO GTPase, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Back     alignment and structure
>2jw5_A DNA polymerase lambda; BRCT domain, family X polymerase, nonhomologous END joining (NHEJ), DNA damage, DNA repair, DNA replication, DNA synthesis; HET: DNA; NMR {Homo sapiens} Back     alignment and structure
>1z56_C DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA ligase, coiled-coil; HET: DNA; 3.92A {Saccharomyces cerevisiae} Back     alignment and structure
>2ep8_A Pescadillo homolog 1; A/B/A 3 layers, nucleolus, ribosome biogenesis, DNA damage, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3ii6_X DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alternative splicing, coiled coil, DNA damage, DNA recombination, isopeptide bond, nucleus; HET: DNA; 2.40A {Homo sapiens} PDB: 2e2w_A* Back     alignment and structure
>2k6g_A Replication factor C subunit 1; protein, BRCT, DNA binding, activator, alternative splicing, ATP-binding, DNA replication, DNA- binding; NMR {Homo sapiens} PDB: 2k7f_A Back     alignment and structure
>2coe_A Deoxynucleotidyltransferase, terminal variant; BRCT domain, DNA polymerase, teminal deoxynucleotidyltransferase, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2ebu_A Replication factor C subunit 1; A/B/A 3 layers, parallel beta-sheet, DNA replication, clamp loader, RFC1, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1l7b_A DNA ligase; BRCT, autostructure, structural genomics, NESG, PSI, protein structure initiative, northeast structural genomics consortium; HET: DNA; NMR {Thermus thermophilus} SCOP: c.15.1.2 Back     alignment and structure
>3pc6_A DNA repair protein XRCC1; BRCT domain, protein:protein interactions, DNA L III-alpha BRCT2 domain, DNA binding protein; HET: DNA; 1.90A {Mus musculus} SCOP: c.15.1.1 PDB: 3pc8_A* 3qvg_B* 1cdz_A Back     alignment and structure
>1kzy_C Tumor suppressor P53-binding protein 1; tandem-BRCT and linker complexed with non-BRCT protein, three-helix bundle, parallel beta sheet; 2.50A {Homo sapiens} SCOP: c.15.1.4 c.15.1.4 PDB: 1gzh_B Back     alignment and structure
>1wf6_A Similar to S.pombe -RAD4+/CUT5+product (A40727); BRCT, topoisomerase II binding protein, checkpoint; NMR {Homo sapiens} SCOP: c.15.1.5 Back     alignment and structure
>2vxb_A DNA repair protein RHP9; BRCT, nucleus, cell cycle, DNA damage, DNA replication inhibitor, phosphoprotein, checkpoint signalling; HET: DNA; 2.3A {Schizosaccharomyces pombe} PDB: 2vxc_A* Back     alignment and structure
>3pa6_A Microcephalin; BRCT domain, cell cycle; HET: MSE; 1.50A {Homo sapiens} PDB: 3ktf_A* 2wt8_A* Back     alignment and structure
>1l0b_A BRCA1; TANDEM-BRCT, three-helix bundle, unknown function; 2.30A {Rattus norvegicus} SCOP: c.15.1.3 c.15.1.3 Back     alignment and structure
>3u3z_A Microcephalin; DNA repair, cell cycle regulation, cell cycle; HET: SEP PTR; 1.50A {Homo sapiens} PDB: 3szm_A* 3t1n_A* 3sht_A 3shv_A* Back     alignment and structure
>3pc7_A DNA ligase 3; DNA repair, BRCT domain, protein:protein interactions, XRCC1 domain, DNA binding protein; HET: DNA MSE; 1.65A {Homo sapiens} SCOP: c.15.1.2 PDB: 3pc8_C* 1imo_A* 1in1_A* 3qvg_A* Back     alignment and structure
>2cok_A Poly [ADP-ribose] polymerase-1; BRCT domain, DNA repair, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2le0_A Back     alignment and structure
>1t15_A Breast cancer type 1 susceptibility protein; protein-peptide complex, antitumor protein; HET: SEP; 1.85A {Homo sapiens} SCOP: c.15.1.3 c.15.1.3 PDB: 1jnx_X* 1t29_A* 1t2v_A* 1y98_A* 3coj_X* 3k0h_A* 3k0k_A* 3pxe_A* 3pxb_A 3pxc_X 1t2u_A 1n5o_X 3pxa_A 3k15_A* 3k16_A* 3pxd_A 2ing_X 1oqa_A Back     alignment and structure
>2ep8_A Pescadillo homolog 1; A/B/A 3 layers, nucleolus, ribosome biogenesis, DNA damage, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3pc7_A DNA ligase 3; DNA repair, BRCT domain, protein:protein interactions, XRCC1 domain, DNA binding protein; HET: DNA MSE; 1.65A {Homo sapiens} SCOP: c.15.1.2 PDB: 3pc8_C* 1imo_A* 1in1_A* 3qvg_A* Back     alignment and structure
>2l42_A DNA-binding protein RAP1; BRCT domain, protein binding; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>2dun_A POL MU, DNA polymerase MU; layers A/B/A, parallel beta-sheet of 4 strands, non- homologous END jonting, somatic hypermutation, V(D)J recombination; HET: DNA; NMR {Homo sapiens} PDB: 2htf_A* Back     alignment and structure
>2etx_A Mediator of DNA damage checkpoint protein 1; tandem BRCT domains histone gamma-H2AX, cell cycle; 1.33A {Homo sapiens} PDB: 2azm_A* 3k05_A* 2ado_A Back     alignment and structure
>2nte_A BARD-1, BRCA1-associated ring domain protein 1; BRCT, ring finger, zinc-binding protein, ubiquitin LI antitumor protein; 1.90A {Homo sapiens} PDB: 3fa2_A 2r1z_A Back     alignment and structure
>1l7b_A DNA ligase; BRCT, autostructure, structural genomics, NESG, PSI, protein structure initiative, northeast structural genomics consortium; HET: DNA; NMR {Thermus thermophilus} SCOP: c.15.1.2 Back     alignment and structure
>3ef0_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD, FCPH, BRCT, hydrolase, ALF4, transition state analog, cobalt, magnesium; 2.10A {Schizosaccharomyces pombe} Back     alignment and structure
>3ef1_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD, FCPH, BRCT, hydrolase, BEF3, acylphosphate analog, cobalt, magnesium; HET: BFD; 2.15A {Schizosaccharomyces pombe} Back     alignment and structure
>2cok_A Poly [ADP-ribose] polymerase-1; BRCT domain, DNA repair, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2le0_A Back     alignment and structure
>2k6g_A Replication factor C subunit 1; protein, BRCT, DNA binding, activator, alternative splicing, ATP-binding, DNA replication, DNA- binding; NMR {Homo sapiens} PDB: 2k7f_A Back     alignment and structure
>2ebu_A Replication factor C subunit 1; A/B/A 3 layers, parallel beta-sheet, DNA replication, clamp loader, RFC1, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3sqd_A PAX-interacting protein 1; tandem BRCT domains, cell cycle; HET: SEP; 2.15A {Homo sapiens} Back     alignment and structure
>3al2_A DNA topoisomerase 2-binding protein 1; BRCT domain, protein binding, DNA binding protein; HET: DNA MSE; 2.00A {Homo sapiens} PDB: 3al3_A* Back     alignment and structure
>2coe_A Deoxynucleotidyltransferase, terminal variant; BRCT domain, DNA polymerase, teminal deoxynucleotidyltransferase, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2jw5_A DNA polymerase lambda; BRCT domain, family X polymerase, nonhomologous END joining (NHEJ), DNA damage, DNA repair, DNA replication, DNA synthesis; HET: DNA; NMR {Homo sapiens} Back     alignment and structure
>4gns_A Chitin biosynthesis protein CHS5; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae} Back     alignment and structure
>2l42_A DNA-binding protein RAP1; BRCT domain, protein binding; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>2dun_A POL MU, DNA polymerase MU; layers A/B/A, parallel beta-sheet of 4 strands, non- homologous END jonting, somatic hypermutation, V(D)J recombination; HET: DNA; NMR {Homo sapiens} PDB: 2htf_A* Back     alignment and structure
>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A {Thermus filiformis} SCOP: a.60.2.2 b.40.4.6 d.142.2.2 PDB: 1v9p_A* Back     alignment and structure
>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli} Back     alignment and structure
>3l41_A BRCT-containing protein 1; BRC1, BRCT domain, tandem BRCT repeat, phosphoserine binding domain, DNA repair, cell division, mitosis; HET: SEP; 1.45A {Schizosaccharomyces pombe} PDB: 3l40_A* Back     alignment and structure
>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A {Thermus filiformis} SCOP: a.60.2.2 b.40.4.6 d.142.2.2 PDB: 1v9p_A* Back     alignment and structure
>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli} 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 948
d1kzyc1153 c.15.1.4 (C:1714-1866) 53BP1 {Human (Homo sapiens) 1e-07
d1t15a1109 c.15.1.3 (A:1649-1757) Breast cancer associated pr 4e-05
>d1kzyc1 c.15.1.4 (C:1714-1866) 53BP1 {Human (Homo sapiens) [TaxId: 9606]} Length = 153 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: BRCT domain
superfamily: BRCT domain
family: 53BP1
domain: 53BP1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.6 bits (118), Expect = 1e-07
 Identities = 16/64 (25%), Positives = 25/64 (39%), Gaps = 1/64 (1%)

Query: 740 KILDRLGASEVSSITDATHFVTDIFVRTRNMLEAIASGKPVVTHLWLESIAQVKIHIDEE 799
            IL+        +       + D   RTR     +ASG P V+H+W+          +  
Sbjct: 73  YILEDF-NEAQCNTAYQCLLIADQHCRTRKYFLCLASGIPCVSHVWVHDSCHANQLQNYR 131

Query: 800 SYLL 803
           +YLL
Sbjct: 132 NYLL 135
>d1t15a1 c.15.1.3 (A:1649-1757) Breast cancer associated protein, BRCA1 {Human (Homo sapiens) [TaxId: 9606]} Length = 109 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 ?
Query948
d1t15a1109 Breast cancer associated protein, BRCA1 {Human (Ho 99.63
d1wf6a_132 DNA topoisomerase II binding protein 1, TopBP1 {Hu 99.46
d1kzyc1153 53BP1 {Human (Homo sapiens) [TaxId: 9606]} 99.39
d1cdza_96 DNA-repair protein XRCC1 {Human (Homo sapiens) [Ta 99.35
d1t15a2102 Breast cancer associated protein, BRCA1 {Human (Ho 99.06
d1t15a2102 Breast cancer associated protein, BRCA1 {Human (Ho 98.88
d1cdza_96 DNA-repair protein XRCC1 {Human (Homo sapiens) [Ta 98.67
d1wf6a_132 DNA topoisomerase II binding protein 1, TopBP1 {Hu 98.5
d1l0ba297 Breast cancer associated protein, BRCA1 {Rat (Ratt 98.45
d1in1a_88 DNA ligase III alpha {Human (Homo sapiens) [TaxId: 98.39
d1l7ba_92 NAD+-dependent DNA ligase, domain 4 {Thermus therm 98.3
d1in1a_88 DNA ligase III alpha {Human (Homo sapiens) [TaxId: 97.97
d1kzyc2106 53BP1 {Human (Homo sapiens) [TaxId: 9606]} 97.69
d1l7ba_92 NAD+-dependent DNA ligase, domain 4 {Thermus therm 97.57
d1kzyc1153 53BP1 {Human (Homo sapiens) [TaxId: 9606]} 97.48
d1t15a1109 Breast cancer associated protein, BRCA1 {Human (Ho 97.25
d1kzyc2106 53BP1 {Human (Homo sapiens) [TaxId: 9606]} 97.02
d1l0ba297 Breast cancer associated protein, BRCA1 {Rat (Ratt 95.12
>d1t15a1 c.15.1.3 (A:1649-1757) Breast cancer associated protein, BRCA1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: BRCT domain
superfamily: BRCT domain
family: BRCT domain
domain: Breast cancer associated protein, BRCA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=2e-16  Score=143.93  Aligned_cols=83  Identities=23%  Similarity=0.310  Sum_probs=76.0

Q ss_pred             eEEEEcCCCCHHHHHHHHHHHHHcCCEEeccCC-CceEEEeCC-----CCChHHHHHHHhCCCCeecHHHHHHHHHhCCC
Q 002240          722 IQVLFSHHLDEDIIKQQKKILDRLGASEVSSIT-DATHFVTDI-----FVRTRNMLEAIASGKPVVTHLWLESIAQVKIH  795 (948)
Q Consensus       722 vrV~FSGf~dee~~k~LKKiIk~LGGsVvddis-d~THLVA~k-----~~RT~KfL~AIA~GipIVSp~WLedClkaGk~  795 (948)
                      +.|++||+...+ .+.++++++.+||.+...+. .|||||+..     +.||.|||.|++.|+|||+++||.+|+++|.+
T Consensus         2 ~~i~~SGl~~~e-~~~l~~~i~~~Gg~~~~~~~~~~THlI~~~~~~~~~~rt~K~l~a~~~g~~IV~~~Wl~~c~~~~~~   80 (109)
T d1t15a1           2 MSMVVSGLTPEE-FMLVYKFARKHHITLTNLITEETTHVVMKTDAEFVCERTLKYFLGIAGGKWVVSYFWVTQSIKERKM   80 (109)
T ss_dssp             CEEEEESCCHHH-HHHHHHHHHHHTCEECSSCCTTCCEEEECBCTTSEECCBHHHHHHHHTTCEEEETHHHHHHHHTTSC
T ss_pred             EEEEECCCCHHH-HHHHHHHHHHcCCEEEeEecCCccEEEEecCcchhhHhhHHHHHHHHCCCccccHHHHHHHHHhCCc
Confidence            689999998665 56799999999999999997 899999963     67999999999999999999999999999999


Q ss_pred             CCCCCcccCC
Q 002240          796 IDEESYLLRD  805 (948)
Q Consensus       796 VDEe~YeL~D  805 (948)
                      +||++|++..
T Consensus        81 l~e~~y~v~~   90 (109)
T d1t15a1          81 LNEHDFEVRG   90 (109)
T ss_dssp             CCGGGGBCCE
T ss_pred             CCchheEEec
Confidence            9999999874
>d1wf6a_ c.15.1.5 (A:) DNA topoisomerase II binding protein 1, TopBP1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1kzyc1 c.15.1.4 (C:1714-1866) 53BP1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1cdza_ c.15.1.1 (A:) DNA-repair protein XRCC1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1t15a2 c.15.1.3 (A:1758-1859) Breast cancer associated protein, BRCA1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1t15a2 c.15.1.3 (A:1758-1859) Breast cancer associated protein, BRCA1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1cdza_ c.15.1.1 (A:) DNA-repair protein XRCC1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wf6a_ c.15.1.5 (A:) DNA topoisomerase II binding protein 1, TopBP1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1l0ba2 c.15.1.3 (A:1705-1801) Breast cancer associated protein, BRCA1 {Rat (Rattus norvegicus) [TaxId: 10116]} Back     information, alignment and structure
>d1in1a_ c.15.1.2 (A:) DNA ligase III alpha {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1l7ba_ c.15.1.2 (A:) NAD+-dependent DNA ligase, domain 4 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1in1a_ c.15.1.2 (A:) DNA ligase III alpha {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1kzyc2 c.15.1.4 (C:1867-1972) 53BP1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1l7ba_ c.15.1.2 (A:) NAD+-dependent DNA ligase, domain 4 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1kzyc1 c.15.1.4 (C:1714-1866) 53BP1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1t15a1 c.15.1.3 (A:1649-1757) Breast cancer associated protein, BRCA1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1kzyc2 c.15.1.4 (C:1867-1972) 53BP1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1l0ba2 c.15.1.3 (A:1705-1801) Breast cancer associated protein, BRCA1 {Rat (Rattus norvegicus) [TaxId: 10116]} Back     information, alignment and structure