Citrus Sinensis ID: 001266

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--

MSTWQIFSDADNNFKWQVSGRILQPEPNGSPIQPHSSSFRLPSMSDLLLEGHSKLRENGNEGADNVSTPMFKTGSGKAVPLKQSSIEKALSVLGTDNDCGISFAGEEHPRENGFGFSNSLFQTGSGKTVNISSAGLVRAKSLLGLEEGRNDWSFEGLQHTRMTSTPRFEVKEGVKGNVFESDTSVLRPSSISKAGFAESRFKNKISSNMMQTEGLNSAPKPPQIKFQTAGGRSLSVSSDALQYARNLLGDPELGTFFHEVDVDQLDLTSFKHRRFDDSSSNKENDVFTSFFRLGTAGTKTASKNFTSPLRLFSNPVRSRINSENINTSANLIEKFDAVDHDGVSGLNGKIPSIKKPIRSTHGHKAIMDNSVEDDIGSKINSLGRSSGKPLADITNSTSTACANIKQTCEKKRLLRSSISPFKRPRISKFSTPLRTNLSSPNGLSTLSSEQSGCEKKVFSRYPYQIPRMCVKEYFGMPPSAQGMLDHLQDQVRQMKSHNADKYMFHDASGLNCIGAEALFNMLAQSGASTQYASKLWVSNHYKWIVWKLACYERCYLAKSAGKFLTVFNVLEELKYRYEREVNNGHRSAIKRILEGDALPSSMMVLCISAIHMNCVPKIETHPEAQNGAENSYAAKLELTDGWYSVDAFLDVLLSKHLAAGKLFVGQKLRIWGAILCGWVGPVSPLEASGSISLQLNINGTYRAHWADRLGFCKGFGAPLAFRCIKSNGGPVPRTLVGVTRIYPVLYKERLSDGRSIVRSERMECKVMQLYQHRQSMVVEGIVSEFQRGNKDSHILNDSNSEGAKLFKMLETVAEPEVIMAEMSPEQLTSFATYQAKLEATRQSNMERSIEKALENAGLRERDVTPFMRVRVVGLTGKNYQGKGSSREGIITIWNPAEKQQCELVEGQAYAILGLIPMNSDSNTLYLQARGSTTKWQPLSPLATEHFKPFFSPRRSVLISNLGEVPLSSEFDIAAFVVHVGDVYEDSQQKKQWVFVTDGSMLELQLEDLSKSLLAISISSPYIDDDSFSPINYNLVGSTVGFCNLIKRPKDHLNHIWVAEATENSSYFLSFDFPTCSHLRSAAASAQSWAKISSLIIDKLKENVLFIIGDRKC

cccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccEEccHHHHHHHHHHHccccccccccccccccccccccccccccccccccEEEEcHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccEEccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHccccccHHHHHHHcccccccEEEEEEEEEEcccccccccccccccccccccccEEEEEcccEEEEEEccHHHHHHHHccccccccEEEEEccEEcccccccccccccccEEEEEEEEcEEEccccccccccccccccccccccccccccEEEEEEEEEEEEccEEEEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHccccHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccEEEEEEEEEEEccccccccccccEEEEEEEcccHHHHHHcccccEEEEEEEcccccccccHHHccccccEEEEEcccccccccccccccccEEcccccccccccccccEEEEEEEEccccccccccEEEEEEEEcccHHHHHHcccccEEEEEEEcccccccccccccccccccEEEEEccccccccccccccEEEEccEEEEEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc

ccccEEEccccccHHHHHHHHHEccccccccccccccccccccHHHHHHcccccccccccccccccccccEEcccccEEEEcHHHHHHHHHHHHHccccccccccccccccccccccccccccccccEEEccHHHHHHHHHHHccHccccccccccccccccccccccccccccccEEcHHHHHHccHcccccccccccccccccccccccccccccccccccccEEcccccEEEEcHHHHHHHHHHHcccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccEEEEEccccccccccHHHHcccccHHHHHHccccccEEEEccHcHHHEEEccccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHccHHHccccccHHHHHHHHHHHHHHHHHccccHHHHHHHHccccccccEEEEEEEEEcccccccccccccccccccccEEEEEEEcccEEEEEEccHHHHHHHHcccEEEcEEEEEEccEEcccccccccccccccEEEEEEEcccccccccHHcccccccccccccHHcccccccccEEEEEEEEEEcHEEEEEcccccEEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHccccHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccEEEEEEEEEEcccccccccccccEEEEEEEcccHHHHHHHHcccEEEEEEEEcccccccEEEEEEcccccEEEEcccccHHHHcccccccccEcHHHHccccccccEEEEEEEEEEEcccccccccEEEEEEEcccccEEEEccccccEEEEEEEEccccccccccccccccccEEEEEEcEEccccccccEEEEEEccccEEEcccccccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHcccc

mstwqifsdadnnfkwqvsgrilqpepngspiqphsssfrlpsmsDLLLEGHSKLrengnegadnvstpmfktgsgkavplkqSSIEKALSvlgtdndcgisfageehprengfgfsnslfqtgsgktvnissaGLVRAKSLlgleegrndwsfeglqhtrmtstprfevkegvkgnvfesdtsvlrpssiskagfaeSRFKNKISsnmmqteglnsapkppqikfqtaggrslsvSSDALQYARNllgdpelgtffhevdvdqldltsfkhrrfddsssnkendvFTSFFrlgtagtktasknftsplrlfsnpvrsrinsenintsanLIEKfdavdhdgvsglngkipsikkpirsthghkaimdnsveddigskinslgrssgkpladitnstsTACANIKQTCEKKRLLrssispfkrpriskfstplrtnlsspnglstlsseqsgcekkvfsrypyqiprmcvkeyfgmppsaqgmLDHLQDQVRQMKshnadkymfhdasglncIGAEALFNMLAqsgastqyasKLWVSNHYKWIVWKLACYERCYLAKSAGKFLTVFNVLEELKYRYEREVNNGHRSAIKRIlegdalpssMMVLCISAIhmncvpkiethpeaqngaenSYAAKLeltdgwysVDAFLDVLLSKHLAAGKLFVGQKLRIWGAilcgwvgpvspleasgsislqlNINGTYRAHWADRlgfckgfgaplafrciksnggpvprtlvgvtrIYPVLYKERLSDGRSIVRSERMECKVMQLYQHRQSMVVEGIVSEfqrgnkdshilndsnsEGAKLFKMLETVaepevimaemspeqlTSFATYQAKLEATRQSNMERSIEKALEnaglrerdvtpFMRVRVVGltgknyqgkgssregiitiWNPAEKQQCELVEGQAYAIlglipmnsdsntLYLQargsttkwqplsplatehfkpffsprrSVLISnlgevplssefdIAAFVVHVGdvyedsqqKKQWVFVTDGSMLELQLEDLSKSLLAIsisspyidddsfspinynlvgstvgfcnlikrpkdhLNHIWVAEatenssyflsfdfptcshlRSAAASAQSWAKISSLIIDKLKENVLFIIGDRKC

mstwqifsdadnnFKWQVSGRILQPEPNGSPIQPHSSSFRLPSMSDLLLEGHSKLRENgnegadnvstpmFKTGSGKAVPLKQSSIEKALSVLGTDNDCGISFAGEEHPRENGFGFSNSLFQTgsgktvnissaGLVRAKSLLGLeegrndwsfeglqhtrmtstprfevkegvkgnvfesdtsvlrpssiskagfaESRFKNKISSNMMQTEGLNSAPKPPQIKFQTAGGRSLSVSSDALQYARNLLGDPELGTFFHEVDVDQLDLTSFKhrrfddsssnkendvftSFFRlgtagtktasknftsplrlfsnpvrsrinseNINTSANLIEKFDAVDHDGVsglngkipsikkpirsthgHKAIMDNSVEDDIGSKINslgrssgkpladitnststacanikqtcekkrllrssispfkrpriskfstplrtnlsspnglstlsseqsgcekKVFSRYPYQIPRMCVKEYFGMPPSAQGMLDHLQDQVRQMKSHNADKYMFHDASGLNCIGAEALFNMLAQSGASTQYASKLWVSNHYKWIVWKLACYERCYLAKSAGKFLTVFNVLEELKYRYerevnnghrsaIKRILEGDALPSSMMVLCISAIHMNCVPKIETHPEAQNGAENSYAAKLELTDGWYSVDAFLDVLLSKHLAAGKLFVGQKLRIWGAILCGWVGPVSPLEASGSISLQLNINGTYRAHWADRLGFCKGFGAPLAFRCIKsnggpvprtlvgvtriypvlykerlsdgrsivrsERMECKVMQLYQHRQSMVVEGIVSEFQRGNKDSHILNDSNSEGAKLFKMLETVAEPEVIMAEMSPEQLTSFATYQAKLEATRQSNMERSIEKAlenaglrerdvtpFMRVRVVGltgknyqgkgssrEGIITIWNPAEKQQCELVEGQAYAILGLIPMNSDSNTLYLQARGSTTKWQPLSPLATEHFKPFFSPRRSVLISNLGEVPLSSEFDIAAFVVHVGDVYEDSQQKKQWVFVTDGSMLELQLEDLSKSLLAISISSPYIDDDSFSPINYNLVGSTVGFCNLIKRPKDHLNHIWVAEATENSSYFLSFDFPTCSHLRSAAASAQSWAKISSLIIDKlkenvlfiigdrkc

MSTWQIFSDADNNFKWQVSGRILQPEPNGSPIQPHSSSFRLPSMSDLLLEGHSKLRENGNEGADNVSTPMFKTGSGKAVPLKQSSIEKALSVLGTDNDCGISFAGEEHPRENGFGFSNSLFQTGSGKTVNISSAGLVRAKSLLGLEEGRNDWSFEGLQHTRMTSTPRFEVKEGVKGNVFESDTSVLRPSSISKAGFAESRFKNKISSNMMQTEGLNSAPKPPQIKFQTAGGRSLSVSSDALQYARNLLGDPELGTFFHEVDVDQLDLTSFKHRRFDDSSSNKENDVFTSFFRLGTAGTKTASKNFTSPLRLFSNPVRSRINSENINTSANLIEKFDAVDHDGVSGLNGKIPSIKKPIRSTHGHKAIMDNSVEDDIGSKINSLGRSSGKPLADITNSTSTACANIKQTCEKKRLLRSSISPFKRPRISKFSTPLRTNLSSPNGLSTLSSEQSGCEKKVFSRYPYQIPRMCVKEYFGMPPSAQGMLDHLQDQVRQMKSHNADKYMFHDASGLNCIGAEALFNMLAQSGASTQYASKLWVSNHYKWIVWKLACYERCYLAKSAGKFLTVFNVLEELKYRYEREVNNGHRSAIKRILEGDALPSSMMVLCISAIHMNCVPKIETHPEAQNGAENSYAAKLELTDGWYSVDAFLDVLLSKHLAAGKLFVGQKLRIWGAILCGWVGPVSPLEASGSISLQLNINGTYRAHWADRLGFCKGFGAPLAFRCIKSNGGPVPRTLVGVTRIYPVLYKERLSDGRSIVRSERMECKVMQLYQHRQSMVVEGIVSEFQRGNKDSHILNDSNSEGAKLFKMLETVAEPEVIMAEMSPEQLTSFATYQAKLEATRQSNMERSIEKALENAGLRERDVTPFMRVRVVGLTGKNYQGKGSSREGIITIWNPAEKQQCELVEGQAYAILGLIPMNSDSNTLYLQARGSTTKWQPLSPLATEHFKPFFSPRRSVLISNLGEVPLSSEFDIAAFVVHVGDVYEDSQQKKQWVFVTDGSMLELQLEDlsksllaisisspyidddsfspiNYNLVGSTVGFCNLIKRPKDHLNHIWVAEATENSSYFLSFDFPTCSHLRSAAASAQSWAKISSLIIDKLKENVLFIIGDRKC

*****IFSDADNNFKWQV************************************************************************SVLGTDNDCGISFA*********FGFSNSLFQTGSGKTVNISSAGLVRAKSLLGLEEGRNDWSFEGL***********************************************************************************LQYARNLLGDPELGTFFHEVDVDQLDLTSFK**************VFTSFFRLGTAGT************L*****************ANLIEKFDAVDHDG*****************************************************************************************************************KVFSRYPYQIPRMCVKEYFGM***********************DKYMFHDASGLNCIGAEALFNMLAQSGASTQYASKLWVSNHYKWIVWKLACYERCYLAKSAGKFLTVFNVLEELKYRYEREVNNGHRSAIKRILEGDALPSSMMVLCISAIHMNCVPKIETH********NSYAAKLELTDGWYSVDAFLDVLLSKHLAAGKLFVGQKLRIWGAILCGWVGPVSPLEASGSISLQLNINGTYRAHWADRLGFCKGFGAPLAFRCIKSNGGPVPRTLVGVTRIYPVLYKERLSDGRSIVRSERMECKVMQLYQHRQSMVVEGIVSEF********************FKMLETV*************************************************DVTPFMRVRVVGLTGKNYQGKGSSREGIITIWNPAEKQQCELVEGQAYAILGLIPMNSDSNTLYLQARGSTTKWQPLSPLATEHFKPFFSPRRSVLISNLGEVPLSSEFDIAAFVVHVGDVYEDSQQKKQWVFVTDGSMLELQLEDLSKSLLAISISSPYIDDDSFSPINYNLVGSTVGFCNLIKRPKDHLNHIWVAEATENSSYFLSFDFPTCSHLRSAAASAQSWAKISSLIIDKLKENVLFIIG****

************************************************************************TGSGKAVPLKQSSIEKALSVLG*****************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************EYFGMPPSAQGMLDHLQDQVRQMKSHNADKYMFHDASGLNCIGAEALFNMLAQSGASTQYASKLWVSNHYKWIVWKLACYERCYLAKSAGKFLTVFNVLEELKYRYEREVNNGHRSAIKRILEGDALPSSMMVLCISAIHMN*******************AAKLELTDGWYSVDAFLDVLLSKHLAAGKLFVGQKLRIWGAILCGWVGPVSPLEASGSISLQLNINGTYRAHWADRLGFCKGFGAPLAFRCIKSNGGPVPRTLVGVTRIYPVLYKERLSDG****************************************************FKMLETVAEPEVIMAEMSP*********************************LRERDVTPFMRVRVVGLTGKN******SREGIITIWNPAEKQQCELVEGQAYAILGLIPMNS*********RGSTTKWQPLSPLATEHFKPFFSPRRSVLISNLGEVPLSSEFDIAAFVVHVGDVYEDSQQKKQWVFVTDGSMLELQLEDLSKSLLAISISSPYIDDDSFSPINYNLVGSTVGFCNLIKRPKDHLNHIWVAEATENSSYFLSFDFPTCSHLRS*AASAQSWAKISSLIIDKLKENVLFIIGDRKC

MSTWQIFSDADNNFKWQVSGRILQPEPNGSPIQPHSSSFRLPSMSDLLLEGHSKLRENGNEGADNVSTPMFKTGSGKAVPLKQSSIEKALSVLGTDNDCGISFAGEEHPRENGFGFSNSLFQTGSGKTVNISSAGLVRAKSLLGLEEGRNDWSFEGLQHTRMTSTPRFEVKEGVKGNVFESDTSVLRPSSISKAGFAESRFKNKISSNMMQTEGLNSAPKPPQIKFQTAGGRSLSVSSDALQYARNLLGDPELGTFFHEVDVDQLDLTSFKHRRFDDSSSNKENDVFTSFFRLGTAGTKTASKNFTSPLRLFSNPVRSRINSENINTSANLIEKFDAVDHDGVSGLNGKIPSIKKPIRSTHGHKAIMDNSVEDDIGSKINSLGRSSGKPLADITNSTSTACANIKQTCEKKRLLRSSISPFKRPRISKFSTPLRTNLSSPNG***********EKKVFSRYPYQIPRMCVKEYFGMPPSAQGMLDHLQDQVRQMKSHNADKYMFHDASGLNCIGAEALFNMLAQSGASTQYASKLWVSNHYKWIVWKLACYERCYLAKSAGKFLTVFNVLEELKYRYEREVNNGHRSAIKRILEGDALPSSMMVLCISAIHMNCVPKIETHPEAQNGAENSYAAKLELTDGWYSVDAFLDVLLSKHLAAGKLFVGQKLRIWGAILCGWVGPVSPLEASGSISLQLNINGTYRAHWADRLGFCKGFGAPLAFRCIKSNGGPVPRTLVGVTRIYPVLYKERLSDGRSIVRSERMECKVMQLYQHRQSMVVEGIVSEFQRGNKDSHILNDSNSEGAKLFKMLETVAEPEVIMAEMSPEQLTSFATYQAKLEATRQSNMERSIEKALENAGLRERDVTPFMRVRVVGLTGKNYQGKGSSREGIITIWNPAEKQQCELVEGQAYAILGLIPMNSDSNTLYLQARGSTTKWQPLSPLATEHFKPFFSPRRSVLISNLGEVPLSSEFDIAAFVVHVGDVYEDSQQKKQWVFVTDGSMLELQLEDLSKSLLAISISSPYIDDDSFSPINYNLVGSTVGFCNLIKRPKDHLNHIWVAEATENSSYFLSFDFPTCSHL**********AKISSLIIDKLKENVLFIIGDRKC

**********DNN**W***************************************************TPMFKTGSGKAVPLKQSSIEKALSVLGTD**************************T**GKTVNISSAGLVRAKSLLGL****************************************L************************************QIKFQTAGGRSLSVSSDALQYARNLLG***********************************************************************************************************************************************************************************************NGLSTLSSEQSGCEKKVFSRYPYQIPRMCVKEYFGMPPSAQGMLDHLQDQVRQMKSHNADKYMFHDASGLNCIGAEALFNMLAQSGASTQYASKLWVSNHYKWIVWKLACYERCYLAKSAGKFLTVFNVLEELKYRYEREVNNGHRSAIKRILEGDALPSSMMVLCISAIHMN*****************SYAAKLELTDGWYSVDAFLDVLLSKHLAAGKLFVGQKLRIWGAILCGWVGPVSPLEASGSISLQLNINGTYRAHWADRLGFCKGFGAPLAFRCIKSNGGPVPRTLVGVTRIYPVLYKERLSDGRSIVRSERMECKVMQLYQHRQSMVVEGIVSEFQRGNKDSHI*N*SNSEGAKLFKMLETVAEPEVIMAEMSPEQLTSFATYQAKLEATRQSNMERSIEKALENAGLRERDVTPFMRVRVVGLTGKNYQGKGSSREGIITIWNPAEKQQCELVEGQAYAILGLIPMNSDSNTLYLQARGSTTKWQPLSPLATEHFKPFFSPRRSVLISNLGEVPLSSEFDIAAFVVHVGDVYEDSQQKKQWVFVTDGSMLELQLEDLSKSLLAISISSPYIDDDSFSPINYNLVGSTVGFCNLIKRPKDHLNHIWVAEATENSSYFLSFDFPTCSHLRSAAASAQSWAKISSLIIDKLKENVLFIIGDRKC

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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		1112	2.2.26 [Sep-21-2011]
P97929		3329	Breast cancer type 2 susc	yes	no	0.392	0.131	0.330	2e-58
P51587		3418	Breast cancer type 2 susc	yes	no	0.410	0.133	0.321	1e-54
O35923		3343	Breast cancer type 2 susc	yes	no	0.393	0.131	0.316	4e-54
Q864S8		3372	Breast cancer type 2 susc	N/A	no	0.409	0.134	0.305	4e-51

>sp\|P97929\|BRCA2_MOUSE Breast cancer type 2 susceptibility protein homolog OS=Mus musculus GN=Brca2 PE=1 SV=2	Back alignment and function desciption

 Score =  228 bits (581), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 158/478 (33%), Positives = 236/478 (49%), Gaps = 41/478 (8%)

Query: 514  GAEALFNMLAQS-GASTQYASKLWVSNHYKWIVWKLACYERCYLAKSAGKFLTVFNVLEE 572
            G E  +  L  + G   +  S +WV+NHY+WIVWKLA  E  +  + A + L    VL +
Sbjct: 2517 GKEEFYRALCDTPGVDPKLISSIWVANHYRWIVWKLAAMEFAFPKEFANRCLNPERVLLQ 2576

Query: 573  LKYRYEREVNNGHRSAIKRILEGDALPSSMMVLCISAIHMNCVPKIETHPEAQNGAENSY 632
            LKYRY+ E++N  RSA+K+ILE D   +  +VLCIS I        ET     +G + + 
Sbjct: 2577 LKYRYDVEIDNSRRSALKKILERDDTAAKTLVLCISDIISPSTKVSETSGGKTSGEDANK 2636

Query: 633  AAKLELTDGWYSVDAFLDVLLSKHLAAGKLFVGQKLRIWGAILCGWVGPVSPLEASGSIS 692
               +ELTDGWY+V A LD  L   + +GKL VGQK+   GA L G     +PLEA  S+ 
Sbjct: 2637 VDTIELTDGWYAVRAQLDPPLMALVKSGKLTVGQKIITQGAELVGSPDACAPLEAPDSLR 2696

Query: 693  LQLNINGTYRAHWADRLGFCKGFGA-PLAFRCIKSNGGPVPRTLVGVTRIYPVLYKERLS 751
            L+++ N T  A W  RLGF +     PL    + S+GG V    + V R+YP+ + E+  
Sbjct: 2697 LKISANSTRPARWHSRLGFFRDPRPFPLPLSSLFSDGGNVGCVDIIVQRVYPLQWVEKTV 2756

Query: 752  DGRSIVRSERMECKVMQLYQHRQSMVVEGIV----SEFQRGNKDS--------------- 792
             G  I RSER E K    +   Q   +E +     +EF+   +D+               
Sbjct: 2757 SGLYIFRSEREEEKEALRFAEAQQKKLEALFTKVHTEFKDHEEDTTQRCVLSRTLTRQQV 2816

Query: 793  HILNDSNSEGAKLFKMLETVAEPEVIMAEMSPEQLTSFATYQAKLEATRQSNMERSIEKA 852
            H L D    GA+L+  ++  ++P+ + A  S EQL +   Y+  L   +Q+ ++    KA
Sbjct: 2817 HALQD----GAELYAAVQYASDPDHLEACFSEEQLRALNNYRQMLNDKKQARIQSEFRKA 2872

Query: 853  LENAGLRE---RDVTPFMRVRVVGLTGKNYQGKGSSREGIITIWNPAEKQQCELVEGQAY 909
            LE+A   E   RDVT   ++RV          K   +  +++IW P+      L EG+ Y
Sbjct: 2873 LESAEKEEGLSRDVTTVWKLRVTSY-------KKKEKSALLSIWRPSSDLSSLLTEGKRY 2925

Query: 910  AILGLIPMNSDSN----TLYLQARGSTTKWQPLSPLATEHFKPFFSPRRSVLISNLGE 963
             I  L    S S     ++ L A    T++Q L P+++E     + PR S+  S L +
Sbjct: 2926 RIYHLAVSKSKSKFERPSIQLTA-TKRTQYQQL-PVSSETLLQVYQPRESLHFSRLSD 2981

Involved in double-strand break repair and/or homologous recombination. Binds RAD51 and potentiates recombinational DNA repair by promoting assembly of RAD51 onto single-stranded DNA (ssDNA). Acts by targeting RAD51 to ssDNA over double-stranded DNA, enabling RAD51 to displace replication protein-A (RPA) from ssDNA and stabilizing RAD51-ssDNA filaments by blocking ATP hydrolysis. May participate in S phase checkpoint activation. Binds selectively to ssDNA, and to ssDNA in tailed duplexes and replication fork structures. In concert with NPM1, regulates centrosome duplication.
Mus musculus (taxid: 10090)

>sp\|P51587\|BRCA2_HUMAN Breast cancer type 2 susceptibility protein OS=Homo sapiens GN=BRCA2 PE=1 SV=2	Back alignment and function description

>sp\|O35923\|BRCA2_RAT Breast cancer type 2 susceptibility protein homolog OS=Rattus norvegicus GN=Brca2 PE=1 SV=1	Back alignment and function description

>sp\|Q864S8\|BRCA2_FELCA Breast cancer type 2 susceptibility protein homolog OS=Felis catus GN=BRCA2 PE=2 SV=2	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		1112
359481269		1126	PREDICTED: uncharacterized protein LOC10	0.973	0.960	0.625	0.0
297735615		1134	unnamed protein product [Vitis vinifera]	0.970	0.951	0.607	0.0
255571461		1156	breast cancer type 2 susceptibility prot	0.977	0.940	0.617	0.0
224129474		1186	predicted protein [Populus trichocarpa]	0.977	0.916	0.589	0.0
449483734		1111	PREDICTED: LOW QUALITY PROTEIN: uncharac	0.983	0.984	0.559	0.0
449440247		1111	PREDICTED: uncharacterized protein LOC10	0.983	0.984	0.560	0.0
42567571		1155	breast cancer 2 susceptibility protein [	0.969	0.933	0.515	0.0
297806051		1151	hypothetical protein ARALYDRAFT_486909 [	0.973	0.940	0.513	0.0
186511378		1151	breast cancer protein 2 like 2A [Arabido	0.964	0.932	0.502	0.0
356551314		1062	PREDICTED: uncharacterized protein LOC10	0.919	0.963	0.513	0.0

>gi\|359481269\|ref\|XP_002264351.2\| PREDICTED: uncharacterized protein LOC100241398 [Vitis vinifera]	Back alignment and taxonomy information

 Score = 1334 bits (3453), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 704/1126 (62%), Positives = 842/1126 (74%), Gaps = 44/1126 (3%)

Query: 1    MSTWQIFSDADNNFKWQVSG--RILQP--EPNGSPIQPHSSSFRLPSMSDLLLEGHSKLR 56
            MSTWQIFSD+DN+F+W++S    + +P  E +G+PIQP+ S+ RLPSM DLLL+G SK+ 
Sbjct: 1    MSTWQIFSDSDNDFRWEISDAQSLTKPVEEASGAPIQPYDSTSRLPSMVDLLLQGCSKIL 60

Query: 57   ENGNEGADNVSTPMFKTGSGKAVPLKQSSIEKALSVLGTDNDCGISFAGEEHPRENGFGF 116
            EN  +G    S PMF+TG GK+V +KQSSI KALSVLG D+D G    G++H R+NG GF
Sbjct: 61   EN--DGPCVESPPMFRTGLGKSVTVKQSSIAKALSVLG-DDDFGA--GGQDHDRDNGCGF 115

Query: 117  SNSLFQTGSGKTVNISSAGLVRAKSLLGLEEGRNDWS----------FEGLQHTRMTSTP 166
            SNSLFQTGSGK VNISSAGLVRAK+LLGLEE  N  S           +GL   + +S  
Sbjct: 116  SNSLFQTGSGKMVNISSAGLVRAKTLLGLEENSNHHSCQEHITKQSVMDGLDGGQNSSC- 174

Query: 167  RFEVKEGVKGNVFESDTSVLRPSSISKAGFAESRFKNKISSNMMQTEGLNSAPKPPQIKF 226
              E++E +     E    V RP S S +   ES   N+   ++ Q+E  N AP PP IKF
Sbjct: 175  -LEMQEDLNSIKSEDAKPVPRPFSTSTSWRTES--INEAVPHLKQSEMYNPAPNPPPIKF 231

Query: 227  QTAGGRSLSVSSDALQYARNLLGDPELGTFFHEVDVDQLDLTSFKHRRFDDSSSNKENDV 286
             TAGGRS+SVSSDALQ AR+LLGDPELGT  +E D D + ++SF    F D+SS+KEND 
Sbjct: 232  HTAGGRSISVSSDALQRARSLLGDPELGTSLNEGDEDDM-ISSFLKGSFRDASSDKENDS 290

Query: 287  FTSFFRLGTAGTKTASKNFTSPLRLFSNPVRSRINSENINTSANLIEKFDAVDHDGVSGL 346
             TS      A +K  SK+F SP+RLF N V+S +  EN  + +NLI+K+           
Sbjct: 291  DTSLSHHEKAKSKHTSKSFISPIRLFPNRVQSSVMPENTYSGSNLIKKY---------AD 341

Query: 347  NGKIPSIKKPI--RSTHGHKAIMDNSVEDDIGSKINSLGRSSGKPLADITNSTSTACANI 404
            + KI   ++P+  R    H  I+DNSV +   S    LGRSSG PL D++N   T   N 
Sbjct: 342  DSKITCPQEPLSNRLCAPH-TIIDNSVANGNCSINKPLGRSSGGPLVDVSNRIGTLLTNK 400

Query: 405  KQTCEKKRLL--RSSISPFKRPRISKFSTPLRTNLS-SPNGLSTLSSEQSGCEKKVFSRY 461
            KQT  +KR L  RSSISPFKRPR SKF  PL +N+S  PNGLSTL+SE + C K+V +RY
Sbjct: 401  KQTITEKRRLGRRSSISPFKRPRSSKFCPPLNSNVSFVPNGLSTLASEDTCCRKRVSTRY 460

Query: 462  PYQIPRMCVKEYFGMPPSAQGMLDHLQDQVRQMKSHNADKYMFHDASGLNCIGAEALFNM 521
            P+  PRM +KEYFG+ P  + +L+HL D+VR M   NA+KYMF D  GL  IG + L+  
Sbjct: 461  PFHAPRMYIKEYFGVLPFNKNVLEHLSDEVRWMNPDNAEKYMFPDEYGLGFIGVDDLYQR 520

Query: 522  LAQSGASTQYASKLWVSNHYKWIVWKLACYERCYLAKSAGKFLTVFNVLEELKYRYEREV 581
            LAQSGAS QYASK W++NHYKWI+WKLACYER Y AK  G+FLT+ NVLEELKYRYEREV
Sbjct: 521  LAQSGASMQYASKEWIANHYKWIIWKLACYERFYPAKHMGRFLTMSNVLEELKYRYEREV 580

Query: 582  NNGHRSAIKRILEGDALPSSMMVLCISAIHMNCVPKIETHPEAQNGAENSYAAKLELTDG 641
            N+GHRSAIKRILEGDA PS+M+VLC+SAIH  C  KI TH  + NG+ENS AAK+ELTDG
Sbjct: 581  NHGHRSAIKRILEGDASPSTMVVLCVSAIHSTCDMKIGTHSVSINGSENSNAAKVELTDG 640

Query: 642  WYSVDAFLDVLLSKHLAAGKLFVGQKLRIWGAILCGWVGPVSPLE---ASGSISLQLNIN 698
            WYS+DAFLD LLSK L AGKLF+GQKLRIWGA LCGWVGPVSPLE      +  L ++IN
Sbjct: 641  WYSIDAFLDALLSKQLFAGKLFIGQKLRIWGAGLCGWVGPVSPLEVLPGCKTAGLLVHIN 700

Query: 699  GTYRAHWADRLGFCKGFGAPLAFRCIKSNGGPVPRTLVGVTRIYPVLYKERLSDGRSIVR 758
            GTYRAHWADRLGFCKG G PLAFRCIKSNGGPVP+TLV VTRIYP+LYKERLS+G SIVR
Sbjct: 701  GTYRAHWADRLGFCKGVGPPLAFRCIKSNGGPVPQTLVRVTRIYPILYKERLSNGGSIVR 760

Query: 759  SERMECKVMQLYQHRQSMVVEGIVSEFQRGNKDSHILNDSNS-EGAKLFKMLETVAEPEV 817
            S RME K+MQLY HR S VVEGI+SEFQRG +DS I ND++S EGAK+F++LE+ AEPEV
Sbjct: 761  SVRMETKMMQLYNHRCSTVVEGIISEFQRGTRDSCINNDNDSEEGAKIFEILESAAEPEV 820

Query: 818  IMAEMSPEQLTSFATYQAKLEATRQSNMERSIEKALENAGLRERDVTPFMRVRVVGLTGK 877
            +MAEM+ EQL SF +YQAKLEA RQS++++SIE ALE AGL  R+VTPFMRVRVVGLT K
Sbjct: 821  LMAEMTSEQLASFTSYQAKLEAIRQSDLQKSIEMALEGAGLSTREVTPFMRVRVVGLTCK 880

Query: 878  NYQGKGSSREGIITIWNPAEKQQCELVEGQAYAILGLIPMNSDSNTLYLQARGSTTKWQP 937
            +Y+GK   +EG+ITIWNP EKQQ ELVEGQAYA+ GL+P+NSDS TLYLQARGSTTKW P
Sbjct: 881  SYEGKIHHKEGLITIWNPTEKQQFELVEGQAYAVAGLMPLNSDSETLYLQARGSTTKWNP 940

Query: 938  LSPLATEHFKPFFSPRRSVLISNLGEVPLSSEFDIAAFVVHVGDVYEDSQQKKQWVFVTD 997
            LSPLA EHF+PF +PR+SVL+SNLGE+PLSSEFDIAA VV+VG+VY  + QKKQWVFVTD
Sbjct: 941  LSPLAIEHFEPFLNPRKSVLLSNLGEIPLSSEFDIAALVVYVGEVYTAAHQKKQWVFVTD 1000

Query: 998  GSMLELQLEDLSKSLLAISISSPYIDDDSFSPINYNLVGSTVGFCNLIKRPKDHLNHIWV 1057
            GS+ EL  E+ S  LLAIS  SP + DDSF+P+N NL GSTVGF NLIKR KD +N +WV
Sbjct: 1001 GSVSELGSEEASNCLLAISFCSPSV-DDSFAPVNSNLEGSTVGFVNLIKRAKDQMNQLWV 1059

Query: 1058 AEATENSSYFLSFDFPTCSHLRSAAASAQSWAKISSLIIDKLKENV 1103
            AEATENS YF SFD P C HL++AAASA+ WAKISSL I+KLKE V
Sbjct: 1060 AEATENSDYFFSFDLPHCYHLKNAAASAERWAKISSLTIEKLKEKV 1105

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|297735615\|emb\|CBI18109.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|255571461\|ref\|XP_002526678.1\| breast cancer type 2 susceptibility protein brca2, putative [Ricinus communis] gi\|223533978\|gb\|EEF35700.1\| breast cancer type 2 susceptibility protein brca2, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|224129474\|ref\|XP_002320595.1\| predicted protein [Populus trichocarpa] gi\|222861368\|gb\|EEE98910.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|449483734\|ref\|XP_004156673.1\| PREDICTED: LOW QUALITY PROTEIN: uncharacterized protein LOC101230245 [Cucumis sativus]	Back alignment and taxonomy information

>gi\|449440247\|ref\|XP_004137896.1\| PREDICTED: uncharacterized protein LOC101215906 [Cucumis sativus]	Back alignment and taxonomy information

>gi\|42567571\|ref\|NP_195783.3\| breast cancer 2 susceptibility protein [Arabidopsis thaliana] gi\|31335362\|emb\|CAD32572.1\| breast cancer susceptibility protein 2b [Arabidopsis thaliana] gi\|332002986\|gb\|AED90369.1\| breast cancer 2 susceptibility protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|297806051\|ref\|XP_002870909.1\| hypothetical protein ARALYDRAFT_486909 [Arabidopsis lyrata subsp. lyrata] gi\|297316746\|gb\|EFH47168.1\| hypothetical protein ARALYDRAFT_486909 [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|186511378\|ref\|NP_191913.3\| breast cancer protein 2 like 2A [Arabidopsis thaliana] gi\|31335360\|emb\|CAD32571.1\| breast cancer susceptibility protein 2a [Arabidopsis thaliana] gi\|332656413\|gb\|AEE81813.1\| breast cancer protein 2 like 2A [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|356551314\|ref\|XP_003544021.1\| PREDICTED: uncharacterized protein LOC100797849 [Glycine max]	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		1112
TAIR\|locus:2149800		1155	BRCA2B "BRCA2-like B" [Arabido	0.911	0.877	0.531	3.6e-295
TAIR\|locus:2126841		1187	BRCA2(IV) "BREAST CANCER 2 lik	0.830	0.777	0.498	2e-252
MGI\|MGI:109337		3329	Brca2 "breast cancer 2" [Mus m	0.399	0.133	0.329	2.3e-49
UNIPROTKB\|P51587		3418	BRCA2 "Breast cancer type 2 su	0.601	0.195	0.269	1.2e-48
UNIPROTKB\|F1Q0X3		3446	BRCA2 "Uncharacterized protein	0.452	0.145	0.292	7.2e-48
RGD\|2219		3343	Brca2 "breast cancer 2, early	0.471	0.156	0.300	3.6e-47
UNIPROTKB\|Q864S8		3372	BRCA2 "Breast cancer type 2 su	0.453	0.149	0.282	5.3e-46
UNIPROTKB\|E1C2I8		3175	BRCA2 "Uncharacterized protein	0.468	0.164	0.283	2.6e-45
UNIPROTKB\|F1N924		3394	BRCA2 "Uncharacterized protein	0.468	0.153	0.283	3.1e-45
UNIPROTKB\|F1P3B2		3397	BRCA2 "Uncharacterized protein	0.468	0.153	0.283	3.1e-45

TAIR\|locus:2149800 BRCA2B "BRCA2-like B" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 2616 (925.9 bits), Expect = 3.6e-295, Sum P(2) = 3.6e-295
 Identities = 566/1065 (53%), Positives = 726/1065 (68%)

Query:    64 DNVST-PMFKTGSGKAVPLKQSSIEKALSVLGTDNDCGISFAGEEHPRENGFGFSNSLFQ 122
             D   T PMF+T  GK VPLK+SSI K LS+LG+D    I  +    PRE+GFG  NSLFQ
Sbjct:   115 DTAETMPMFRTALGKTVPLKESSIAKPLSILGSDM---IIDSDNVLPRESGFGVPNSLFQ 171

Query:   123 TGSGKTVNISSAGLVRAKSLLGLEEGRNDWSFEGLQHTRMTSTPRFEVK-EGVKGNVFES 181
             T S K VN+SSAGL RAK+LLGLEE  +D    G  H   +S+   +    G+K +  E 
Sbjct:   172 TASNKKVNVSSAGLARAKALLGLEE--DD--LNGFNHVNQSSSSLQQHGWSGLKTHE-EF 226

Query:   182 DTSVLRPSSISKAGFAESRFKNKISSNMMQTEGLNSAPKPPQIKFQTAGGRSLSVSSDAL 241
             D +V++  S    G    +++N +S    ++E LN + K P  KFQTAGG+SLSVS++AL
Sbjct:   227 DATVVKHHS----G-TPGQYENYVSGK--RSEILNPSLKVPPTKFQTAGGKSLSVSAEAL 279

Query:   242 QYARNLLGDPELGTFFHEVDVDQLDLTSFKHRRFDDSSSNKENDVFTSFF-RLGTAGTKT 300
             + ARNLLGDPELG+FF +V       T  K  R  D + N    V T +         K 
Sbjct:   280 KRARNLLGDPELGSFFDDVAGGDQFFTPQKDERLSDIAINN-GSVNTGYIAHEEKTSNKH 338

Query:   301 ASKNFTSPLRLFSNPVRSRINSENINTSANLIEKFD-AVDHDGVSGLNGKIPSIKKPIRS 359
              S +F SPL   S   RS +N EN+ +  NLI+KFD AVD    + LN     I KP  +
Sbjct:   339 TSNSFVSPLHSSSKQFRS-VNLENLASGGNLIKKFDTAVDETNCA-LN-----ISKP--A 389

Query:   360 THG----HKAIMDNSVEDDIGS----KINSLGRSSGKPLADITNSTSTACANIKQ-TCEK 410
             THG         D +V +  G+    +   LGR + +PL DITN   TA AN KQ + +K
Sbjct:   390 THGLSNNRPLASDMAVNNSKGNGFIPRARQLGRPADQPLVDITNRRDTAYANNKQDSTQK 449

Query:   411 KRLLRS-SISPFKRPRISKFSTPLRTNLS-SPNGLSTLSSEQSGCEKKVFSRYPYQIPRM 468
             KRL ++ S+SPFKRPRIS F TPL+ N   + +GLS +S +    +K + +RYP + PR+
Sbjct:   450 KRLGKTVSVSPFKRPRISSFKTPLKKNAQQASSGLSVVSCDTLTSKKVLSTRYPEKSPRV 509

Query:   469 CVKEYFGMPPSAQGMLDHLQDQVRQMKSHNADKYMFHDASGLNCIGAEALFNMLAQSGAS 528
              +KE+FGM P+A   +D++ D VR++KS NADKY+F D S  N +GAE    MLA+SGAS
Sbjct:   510 YIKEFFGMHPTATTRMDYVPDHVRRIKSSNADKYVFCDESSSNKVGAETFLQMLAESGAS 569

Query:   529 TQYASKLWVSNHYKWIVWKLACYERCYLAKSAGKFLTVFNVLEELKYRYEREVNNGHRSA 588
              Q+AS+ WV+NHY+WIVWKLACY+  Y AK  G FLT+ NVLEELKYRYEREVN+GH SA
Sbjct:   570 LQHASRKWVTNHYRWIVWKLACYDIYYPAKCRGNFLTITNVLEELKYRYEREVNHGHCSA 629

Query:   589 IKRILEGDALPSSMMVLCISAIHMNCVPKIETHPEAQNGAENSYAAKLELTDGWYSVDAF 648
             IKRIL GDA  SSMMVLCISAI+    P+ +   +  + ++N    K+ELTDGWYS++A 
Sbjct:   630 IKRILSGDAPASSMMVLCISAIN----PRTDNGSQEAHCSDNCSNVKVELTDGWYSMNAA 685

Query:   649 LDVLLSKHLAAGKLFVGQKLRIWGAILCGWVGPVSPLEA--SGSISLQLNINGTYRAHWA 706
             LDV+L+K L AGKLFVGQKLRI GA L GW  P SPLEA  S +I L LNINGTYRAHWA
Sbjct:   686 LDVVLTKQLNAGKLFVGQKLRILGAGLSGWATPTSPLEAVISSTICLLLNINGTYRAHWA 745

Query:   707 DRLGFCKGFGAPLAFRCIKSNGGPVPRTLVGVTRIYPVLYKERLSDGRSIVRSERMECKV 766
             DRLGFCK  G PLAF CIK NGGPVP+TL G+TRIYP+LYKERL + +SIVRSER+E ++
Sbjct:   746 DRLGFCKEIGVPLAFNCIKCNGGPVPKTLAGITRIYPILYKERLGEKKSIVRSERIESRI 805

Query:   767 MQLYQHRQSMVVEGIVSEFQRGNKDSHILNDSNSE-GAKLFKMLETVAEPEVIMAEMSPE 825
             +QL+  R+S +VEGI+ E+QRG    H  ND++SE GAK+FK+LET AEPE++MAEMS E
Sbjct:   806 IQLHNQRRSALVEGIMCEYQRGINGVHSQNDTDSEEGAKVFKLLETAAEPELLMAEMSLE 865

Query:   826 QLTSFATYQAKLEATRQSNMERSIEKALENAGLRERDVTPFMRVRVVGLTGKNYQGKGSS 885
             QLTSF TY+AK EA +Q  ME+S+ KALE+AGL ER+VTPFMR+R+VGLT  + +G+ + 
Sbjct:   866 QLTSFTTYKAKFEAAKQMQMEKSVAKALEDAGLGERNVTPFMRIRLVGLTSLSNEGEHNP 925

Query:   886 REGIITIWNPAEKQQCELVEGQAYAILGLIPMNSDSNTLYLQARGSTTKWQPLSPLATEH 945
             +EGI+TIW+P E+Q+ EL EG+ Y + GL+PMNSDS TLYL ARGS+++WQPLSP  +E+
Sbjct:   926 KEGIVTIWDPTERQRTELTEGKIYIMKGLVPMNSDSETLYLHARGSSSRWQPLSPKDSEN 985

Query:   946 FKPFFSPRRSVLISNLGEVPLSSEFDIAAFVVHVGDVYEDSQQKKQWVFVTDGSMLELQL 1005
             F+PFF+PR+ + +SNLGE+PLSSEFDIAA+VV+VGD Y D  QKKQWVFVTDGS      
Sbjct:   986 FQPFFNPRKPISLSNLGEIPLSSEFDIAAYVVYVGDAYTDVLQKKQWVFVTDGSTQHSG- 1044

Query:  1006 EDXXXXXXXXXXXXXXXXXXXXXXXNYNLVGSTVGFCNLIKRPKDHLNHIWVAEATENSS 1065
              +                       ++NLVGS VGFCNLIKR KD  N +WVAE TENS 
Sbjct:  1045 -EISNSLLAISFSTPFMDDSSVSHISHNLVGSVVGFCNLIKRAKDATNEMWVAETTENSV 1103

Query:  1066 YFLSFDFPTCSHLRSAAASAQSWAKI--SSLIIDKLKENVLFIIG 1108
             YF++ +    SHL++ +A  Q+WAK+  S  +I +L++ VLFIIG
Sbjct:  1104 YFINAEAAYSSHLKTRSAHIQTWAKLYSSKSVIHELRQRVLFIIG 1148

GO:0000724 "double-strand break repair via homologous recombination" evidence=IEA

GO:0003697 "single-stranded DNA binding" evidence=IEA;IBA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006281 "DNA repair" evidence=IEA

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

GO:0006310 "DNA recombination" evidence=IEA

GO:0007090 "regulation of S phase of mitotic cell cycle" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

TAIR\|locus:2126841 BRCA2(IV) "BREAST CANCER 2 like 2A" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

MGI\|MGI:109337 Brca2 "breast cancer 2" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|P51587 BRCA2 "Breast cancer type 2 susceptibility protein" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|F1Q0X3 BRCA2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

RGD\|2219 Brca2 "breast cancer 2, early onset" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

UNIPROTKB\|Q864S8 BRCA2 "Breast cancer type 2 susceptibility protein homolog" [Felis catus (taxid:9685)]	Back alignment and assigned GO terms

UNIPROTKB\|E1C2I8 BRCA2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|F1N924 BRCA2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|F1P3B2 BRCA2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	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
Query		1112
cd04494		251	cd04494, BRCA2DBD_OB2, BRCA2DBD_OB2: A subfamily o	9e-66
pfam09103		118	pfam09103, BRCA-2_OB1, BRCA2, oligonucleotide/olig	4e-42
cd04493		100	cd04493, BRCA2DBD_OB1, BRCA2DBD_OB1: A subfamily o	7e-37
pfam09169		195	pfam09169, BRCA-2_helical, BRCA2, helical	8e-13
pfam00634		34	pfam00634, BRCA2, BRCA2 repeat	0.001

>gnl\|CDD\|239940 cd04494, BRCA2DBD_OB2, BRCA2DBD_OB2: A subfamily of OB folds corresponding to the second OB fold (OB2) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD	Back alignment and domain information

 Score =  221 bits (566), Expect = 9e-66
 Identities = 79/259 (30%), Positives = 124/259 (47%), Gaps = 31/259 (11%)

Query: 720 AFRCIKSNGGPVPRTLVGVTRIYPVLYKERLSDGRSIVRSERMECKVMQLYQHRQSMVVE 779
               +  +GG V    V + R+YP+ + E+ S+G S+ RSER E +  +L+  RQ   +E
Sbjct: 1   PLSSLYDSGGLVGCVDVIILRVYPLQWVEKTSEGGSVFRSERAEEREARLHAQRQQKKLE 60

Query: 780 GIVSEFQRGNKDSHILN---------------DSNSEGAKLFKMLETVAEPEVIMAEMSP 824
            + S+ Q   +     N                   +GA+L++ LE  A+P  + AE+S 
Sbjct: 61  ALFSKIQEEFEKEEEDNNQRRPRSRTRTRQNVTDLQDGAELYEALEAAADPSFLEAELSE 120

Query: 825 EQLTSFATYQAKL----EATRQSNMERSIEKALENAGLRERDVTPFMRVRVVGLTGKNYQ 880
           EQL + + YQ       +A  Q    +++E+AL+  GL +RDVTP  ++RV     K   
Sbjct: 121 EQLEALSNYQQLQNEKKQARLQEEFRKAVEEALKEEGLSKRDVTPVWKLRVTDYRSKP-- 178

Query: 881 GKGSSREGIITIWNPAEKQQCELVEGQAYAILGLIPMNSDS----NTLYLQARGSTTKWQ 936
                + G+++IW P E  +  L EG+ Y I GL   NS        + L A   T  +Q
Sbjct: 179 ----EKSGLLSIWRPTEDLRSLLTEGKRYRIYGLATSNSKKRSGNEEVQLTATKKTR-YQ 233

Query: 937 PLSPLATEHFKPFFSPRRS 955
           PL     E F+PF  PR++
Sbjct: 234 PLPVSQRELFQPFQ-PRKA 251

BRCA2 participates in homologous recombination-mediated repair of double-strand DNA breaks. It stimulates the displacement of Replication protein A (RPA), the most abundant eukaryotic ssDNA binding protein. It also facilitates filament formation. Mutations that map throughout the BRCA2 protein are associated with breast cancer susceptibility. BRCA2 is a large nuclear protein and its most conserved region is the C-terminal BRCA2DBD. BRCA2DBD binds ssDNA in vitro, and is composed of five structural domains, three of which are OB folds (OB1, OB2, and OB3). BRCA2DBD OB2 and OB3 are arranged in tandem, and their mode of binding can be considered qualitatively similar to two OB folds of RPA1, DBD-A and DBD-B (the major DBDs of RPA). Length = 251

>gnl\|CDD\|117663 pfam09103, BRCA-2_OB1, BRCA2, oligonucleotide/oligosaccharide-binding, domain 1	Back alignment and domain information

>gnl\|CDD\|239939 cd04493, BRCA2DBD_OB1, BRCA2DBD_OB1: A subfamily of OB folds corresponding to the first OB fold (OB1) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD	Back alignment and domain information

>gnl\|CDD\|117723 pfam09169, BRCA-2_helical, BRCA2, helical	Back alignment and domain information

>gnl\|CDD\|201361 pfam00634, BRCA2, BRCA2 repeat	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		1112
KOG4751		756	consensus DNA recombinational repair protein BRCA2	100.0
cd04494		251	BRCA2DBD_OB2 BRCA2DBD_OB2: A subfamily of OB folds	100.0
PF09103		118	BRCA-2_OB1: BRCA2, oligonucleotide/oligosaccharide	100.0
cd04493		100	BRCA2DBD_OB1 BRCA2DBD_OB1: A subfamily of OB folds	100.0
PF09169		195	BRCA-2_helical: BRCA2, helical; InterPro: IPR01525	99.95
PF09104		143	BRCA-2_OB3: BRCA2, oligonucleotide/oligosaccharide	99.8
cd04495		100	BRCA2DBD_OB3 BRCA2DBD_OB3: A subfamily of OB folds	99.57
KOG4751		756	consensus DNA recombinational repair protein BRCA2	99.56
PF00634		35	BRCA2: BRCA2 repeat; InterPro: IPR002093 The breas	98.64
PF00634		35	BRCA2: BRCA2 repeat; InterPro: IPR002093 The breas	98.53
TIGR00617		608	rpa1 replication factor-a protein 1 (rpa1). This f	98.19
PF09121		42	Tower: Tower; InterPro: IPR015205 This domain adop	98.05
PRK12366		637	replication factor A; Reviewed	95.75
PRK07218		423	replication factor A; Provisional	95.62
PRK07211		485	replication factor A; Reviewed	95.49
PRK12366		637	replication factor A; Reviewed	94.78
PF04057		101	Rep-A_N: Replication factor-A protein 1, N-termina	94.15
PRK15491		374	replication factor A; Provisional	94.0
cd04475		101	RPA1_DBD_B RPA1_DBD_B: A subfamily of OB folds cor	93.69
cd04477		97	RPA1N RPA1N: A subfamily of OB folds corresponding	93.61
PRK06386		358	replication factor A; Reviewed	92.44
PRK07211		485	replication factor A; Reviewed	91.32
cd04497		138	hPOT1_OB1_like hPOT1_OB1_like: A subfamily of OB f	90.62
PRK15491		374	replication factor A; Provisional	90.48
PRK14699		484	replication factor A; Provisional	87.6
PRK14699		484	replication factor A; Provisional	87.09

>KOG4751 consensus DNA recombinational repair protein BRCA2 [Replication, recombination and repair]	Back alignment and domain information

Probab=100.00  E-value=4.9e-103  Score=890.22  Aligned_cols=696  Identities=38%  Similarity=0.499  Sum_probs=603.4

Q ss_pred             CcceeeeccC-CCCceEEeecceeccCCCCCCCCCCCCCCCCchHHHHHhhccccccccCCCCCCCCCCCceecCCCcee
Q 001266            1 MSTWQIFSDA-DNNFKWQVSGRILQPEPNGSPIQPHSSSFRLPSMSDLLLEGHSKLRENGNEGADNVSTPMFKTGSGKAV   79 (1112)
Q Consensus         1 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~F~TgsGK~V   79 (1112)
                      |+||+.|.++ +.+|+||+.+||++...|+++..+..+++++|||+|+|+|+|.|++..-|..|+.  -|||+||+||.|
T Consensus         1 ~~t~~~~~s~s~s~f~fesafr~~S~veDst~~~~s~~~~~~~S~~D~L~~e~~k~Ir~~E~~~~~--~~~f~Talgkev   78 (756)
T KOG4751|consen    1 MSTWALFYSSSGSGFRFESAFRILSSVEDSTPTKASESTAPLPSMADLLLQECSKLIRREELMPGE--IPMFRTALGKEV   78 (756)
T ss_pred             CccceeeccccCCchhHHHHHHHHhhhhccchhhhhhcccCCcchhhhhhhhhhhhhcchhhcccc--chhhhhccccce
Confidence            8999999876 9999999999999999999999999999999999999999999999988777765  899999999999


Q ss_pred             ecchhhHHHHHHHhCCC--------------------------------------------------CCCCCCCCCCCCC
Q 001266           80 PLKQSSIEKALSVLGTD--------------------------------------------------NDCGISFAGEEHP  109 (1112)
Q Consensus        80 ~vsesSiqkAr~~l~~~--------------------------------------------------~~~~~~~~~~~~~  109 (1112)
                      ++.|+|+.|||.||++-                                                  ++..+...++++|
T Consensus        79 ~l~EsS~~k~ksVLee~~k~e~~r~~~~s~~~r~~vs~aetm~d~r~ge~~v~P~ke~S~~k~l~l~g~~~is~~d~enP  158 (756)
T KOG4751|consen   79 VLKESSIAKAKSVLEEKVKYEDLRNTNCSIPQRRQVSTAETMPDFRTGEGKVVPLKESSIAKELSLLGSDCISDSDNENP  158 (756)
T ss_pred             eehhcCHHHHHHHHHHHHHHHHHhhccCCchhhhhhhhccccccCCCCCCCcCcccccccccceeecCCcccccCcccCc
Confidence            99999999999999882                                                  1112223677778


Q ss_pred             CCCCCCccCCccccCCCceEEechhHHHHHHHHhccccCCCCcccccccCCC-CcCCCcceeecCCcccccccccccccC
Q 001266          110 RENGFGFSNSLFQTGSGKTVNISSAGLVRAKSLLGLEEGRNDWSFEGLQHTR-MTSTPRFEVKEGVKGNVFESDTSVLRP  188 (1112)
Q Consensus       110 ~~~~~~~~~~iFsTaSGKsV~VS~asLqkAkqvf~~~e~~~~~s~q~f~~~~-~~~~~~~~~~eg~~~~v~ee~~~~~~~  188 (1112)
                      +..+++..+++|+|+|-|+|+|+++||.+|+.||+.+|++    .-+|.|+. .+.+.|...|.+.+.+- |-+....+.
T Consensus       159 ~e~~~~~~~S~Fqt~srkkV~vtk~sL~~ak~llg~Eeds----~~~~~h~~gsss~~qd~p~K~~~th~-eFd~~e~~~  233 (756)
T KOG4751|consen  159 RESGFGVVNSLFQTASRKKVNVTKASLARAKALLGLEEDS----LNGFNHVNGSSSSPQDHPWKGLKTHE-EFDATEVKH  233 (756)
T ss_pred             cccCcccceeccccccceeeeechhHHHHHhhhhCccccc----ccccccccCCCCCcccCCccccCchh-hccchhhhc
Confidence            8899999999999999999999999999999999999985    66788886 44555656666654432 222222221


Q ss_pred             CCccccccccccccccccccccccccCCCCCCCCCcceecCCCceEEeCHHHHHHHHHhcCCCCCCcccccccc--cccc
Q 001266          189 SSISKAGFAESRFKNKISSNMMQTEGLNSAPKPPQIKFQTAGGRSLSVSSDALQYARNLLGDPELGTFFHEVDV--DQLD  266 (1112)
Q Consensus       189 ~~~s~~g~~~~~~~~~~~~~~~~p~~~n~~~~~~~~gFsTAsGK~VsVSe~aL~rAk~lL~e~dl~~~~~~~~~--~~~~  266 (1112)
                      +..+ .|.+..++.+.. .-+++|.     -+.+++.|+++.|++++||=.|+..|+.+|+|+++.-++++.++  |+..
T Consensus       234 ~~~t-~~ry~~yvg~~~-i~Vl~ps-----~kv~~td~~dri~e~~svSLeA~ks~~~~l~D~~l~~~~~~L~gv~gd~~  306 (756)
T KOG4751|consen  234 HSGT-PGRYEAYVGGKR-IEVLNPS-----LKVPPTDFQDRIGESLSVSLEALKSARNLLGDPELGSFFDDLAGVGGDQF  306 (756)
T ss_pred             ccCC-cchheeeeccee-EEeeccc-----cccCcccHHhhhhhhhhHHHHHhhhhhhhcCCCccceeeeeeecccccce
Confidence            1111 122222221111 2234443     37889999999999999999999999999999999999999998  9999


Q ss_pred             ccccccCCCCCCCCCCCCCcccceeeeccCCCccccccccCcccccCccccccCCccccccCCccceeeecccCCCccCC
Q 001266          267 LTSFKHRRFDDSSSNKENDVFTSFFRLGTAGTKTASKNFTSPLRLFSNPVRSRINSENINTSANLIEKFDAVDHDGVSGL  346 (1112)
Q Consensus       267 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~f~~~l~~~~~~~~~~~~~~~~~~g~~~~~~~~a~~~~~~~~~  346 (1112)
                      ++.-+++++++.+.++.......+.|...+..||.+.+|.+|++++.+.+. +.|.++...|+|+|++|+..++.-.|.+
T Consensus       307 ~tke~de~~s~iaia~g~en~~y~~neE~~~~kh~s~s~a~~g~~~~k~fs-S~Nv~~R~l~~~ii~~Fkt~~l~yr~~~  385 (756)
T KOG4751|consen  307 FTKEKDERLSDIAIANGSENRGYIANEEKTSNKHTSNSFASPGHSSSKQFS-SVNVENRALGGNIIKKFKTAVLEYRCAL  385 (756)
T ss_pred             echhhhcccccceeccchhhhhhhhhHHHhhhcccccccccCCCChHHhhc-chhHHHHhcCCceeeeehhhhhhhhhhh
Confidence            999999999999999999999999999999999999999999999999987 8899999999999999999998877766


Q ss_pred             CCCCCCCCCCcc-ccCCCceeecCCCcccccccccccCCCCCCCcccccccccccccccccc-ccccccc-CCCCCCCCC
Q 001266          347 NGKIPSIKKPIR-STHGHKAIMDNSVEDDIGSKINSLGRSSGKPLADITNSTSTACANIKQT-CEKKRLL-RSSISPFKR  423 (1112)
Q Consensus       347 ~~~~~~~~kp~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~isn~~~~~~~~~~~~-~~krr~g-~~~~sp~k~  423 (1112)
                      |=. +.+--.+- ..++-++.++++++|++..+.....+|...|++|++|..++++.+++|. +.++|++ ...++||+|
T Consensus       386 ~~r-~~~~~~~n~~g~~Sd~~~n~~kvne~~~~~k~~~~~a~~~~~~~~~~r~~dla~~~Q~~~~~~dlrit~~~~~~~r  464 (756)
T KOG4751|consen  386 NFR-LATHGLSNNRGLASDMAVNNSKVNEFIPRVKQEGRPADQPLVDITNRRDTDLARNKQDSTQKKDLRITVSVSPFKR  464 (756)
T ss_pred             hcc-HhhhcccCCCCccchhhcccccccceeehhccCCCccccccccccccchHHHHHhhhhhhhhhhcceeeeeccccc
Confidence            611 11111111 1222389999999999999999999999999999999999999999998 9999999 999999999


Q ss_pred             CCcCCcccccccCC-CCCCCCCccCCCCCCceeeeeecCCCCCcccchhhccCCCCCccccccccccchhcccccCccce
Q 001266          424 PRISKFSTPLRTNL-SSPNGLSTLSSEQSGCEKKVFSRYPYQIPRMCVKEYFGMPPSAQGMLDHLQDQVRQMKSHNADKY  502 (1112)
Q Consensus       424 p~~~~~~~p~~~~~-~~p~~~~~~s~~~~~~~~~~~~~~p~~~~R~~i~~~f~~~~~~~~~~~~v~~~v~~i~~~nA~~y  502 (1112)
                      |+..+|++|+..+. ...+++++.+..+..|+++...|||-..||.+|+++|||+|++.+.+-+.++.|..|.-.+|..|
T Consensus       465 p~~gs~~~~~~~~~p~is~g~~V~~~~~~~s~~k~l~~y~~~~~~vki~~~~~~~~~~~t~~~~~~~~~~~~~~~~ad~~  544 (756)
T KOG4751|consen  465 PRIGSFKTPWKKPAPQISSGLSVVSCDTLTSKKKLLTRYPEKSPRVKIKVFFGMHPTATTRMFGKESLVTGIGIQLADGG  544 (756)
T ss_pred             CCCCceeccccCcccccccCceeEEEecccccccceeeccccCcceEeeeccccCcceeeeeccchhhhcccceeeccCc
Confidence            99999999999988 78899999999999999999999999999999999999999999888899999999999999999


Q ss_pred             eeecCCCCcccCHHHHHHHHHhCCCCccccCHhHHHHHHHHHHHHHhhhhhcccccccCCCCCHHHHHHHHHHHHHHHHh
Q 001266          503 MFHDASGLNCIGAEALFNMLAQSGASTQYASKLWVSNHYKWIVWKLACYERCYLAKSAGKFLTVFNVLEELKYRYEREVN  582 (1112)
Q Consensus       503 ~F~~~~~~~~~G~eef~~~L~~~G~~~~l~~~~WV~NHyrwIVWKLA~~er~~P~~~~~~~lTp~~VL~QLkyRYerEi~  582 (1112)
                      -|..   ++..|.+|||.+||+.    -+....|+.|||+|||||||||+.+||.+|+++|||+++||+|||||||+|+|
T Consensus       545 ~~~~---~~~~~~~e~~~~l~~~----~~~~~~~~~~~~~wivwkla~~~~~~p~~~~~~~lt~~~vl~~lkyry~~ev~  617 (756)
T KOG4751|consen  545 WLIP---DGKKGKEEFYLALCDT----PLKVCDWSFEACMWIVWKLACYDIYYPAKCRGNFLTITNVLEELKYRYEREVN  617 (756)
T ss_pred             eecc---cccchHHHHHHHHhcc----hhhhhhhhhHHHHHHHHHHhHhhhcChHHHhcCcCCHHHHHHHHHHHHhhhcc
Confidence            9987   4567899999999974    37889999999999999999999999999999999999999999999999999


Q ss_pred             cCCCchhhhhHhCCCCCCCeEEEEEEeeeecCCCCcCCCccccCCCCCCcccEEEEeeceeEEeccccHHHHHHHHcCCc
Q 001266          583 NGHRSAIKRILEGDALPSSMMVLCISAIHMNCVPKIETHPEAQNGAENSYAAKLELTDGWYSVDAFLDVLLSKHLAAGKL  662 (1112)
Q Consensus       583 ~~~RSaLRrIlE~D~~~s~~MVLcVs~I~~~~~~~~e~~~~~~~g~~~~~~~~LELTDGWY~IkA~lD~~L~~~l~~GkI  662 (1112)
                      +++||||||||+||++|+++||||||+|.+..+    +.+++...++++..++||||||||+++|+||++|++.|.+|||
T Consensus       618 ~~~~saik~i~~~d~~a~~~~vlcis~i~~~t~----n~s~~~~~~d~~~~~~veltdgwy~~~a~ld~~l~~~l~~g~l  693 (756)
T KOG4751|consen  618 HGHCSAIKRILSGDAPASSMMVLCISAINPLTD----NISQEAHCSDTCSNVKVELTDGWYSMNAALDVVLTKQLNAGKL  693 (756)
T ss_pred             cchHHHHHHHHcCCCcchheEeeehhhcccccc----CcccccccccccceeEEEeecchhhhhhccchHHHHHhccCce
Confidence            999999999999999999999999999976443    3344456667888999999999999999999999999999999


Q ss_pred             ccCceEEEEcceeccCCCCCCccccCCccEEEEEeeceeeccccCccccccCCC-Ccccceee
Q 001266          663 FVGQKLRIWGAILCGWVGPVSPLEASGSISLQLNINGTYRAHWADRLGFCKGFG-APLAFRCI  724 (1112)
Q Consensus       663 ~vG~KL~I~GA~L~~~~~~~sPLEa~~~~~L~L~~NstrrA~W~akLGf~~~~~-~p~~L~sl  724 (1112)
                      +|||||+.+|+.+.+....|.||+++++.++.|.+ +||+++|..++|+.+.+. ++.+|.++
T Consensus       694 ~vgqk~~~~~~~~~~~~~~~~~l~~~~t~~~~~~a-~~~~~~~~~~~~~~~~~~~~~~~l~~~  755 (756)
T KOG4751|consen  694 FVGQKLRHAYVLISYLKILGAGLSGWATPTSPLEA-VISSTICLLLNINGTYRAHWADRLGFC  755 (756)
T ss_pred             ehhhhhhhhheeeecccccCCCcCcccccCcchhh-hccchhhheeccCCCCccccccccccc
Confidence            99999999999999999999999999988888888 888888888888877654 35566543

>cd04494 BRCA2DBD_OB2 BRCA2DBD_OB2: A subfamily of OB folds corresponding to the second OB fold (OB2) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD	Back alignment and domain information

>PF09103 BRCA-2_OB1: BRCA2, oligonucleotide/oligosaccharide-binding, domain 1; InterPro: IPR015187 This domain assumes an OB fold, which consists of a highly curved five-stranded beta-sheet that closes on itself to form a beta-barrel	Back alignment and domain information

>cd04493 BRCA2DBD_OB1 BRCA2DBD_OB1: A subfamily of OB folds corresponding to the first OB fold (OB1) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD	Back alignment and domain information

>PF09169 BRCA-2_helical: BRCA2, helical; InterPro: IPR015252 The mechanism of double-strand break repair (DSBR) is evolutionarily conserved and can be divided into two main pathways: homologous recombination (HR) and non-homologous end joining (NHEJ)	Back alignment and domain information

>PF09104 BRCA-2_OB3: BRCA2, oligonucleotide/oligosaccharide-binding, domain 3; InterPro: IPR015188 This domain assumes an OB fold, which consists of a highly curved five-stranded beta-sheet that closes on itself to form a beta-barrel	Back alignment and domain information

>cd04495 BRCA2DBD_OB3 BRCA2DBD_OB3: A subfamily of OB folds corresponding to the third OB fold (OB3) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD	Back alignment and domain information

>KOG4751 consensus DNA recombinational repair protein BRCA2 [Replication, recombination and repair]	Back alignment and domain information

>PF00634 BRCA2: BRCA2 repeat; InterPro: IPR002093 The breast cancer type 2 susceptibility protein has a number of 39 amino acid repeats [] that are critical for binding to RAD51 (a key protein in DNA recombinational repair) and resistance to methyl methanesulphonate treatment [, , ]	Back alignment and domain information

>PF00634 BRCA2: BRCA2 repeat; InterPro: IPR002093 The breast cancer type 2 susceptibility protein has a number of 39 amino acid repeats [] that are critical for binding to RAD51 (a key protein in DNA recombinational repair) and resistance to methyl methanesulphonate treatment [, , ]	Back alignment and domain information

>TIGR00617 rpa1 replication factor-a protein 1 (rpa1)	Back alignment and domain information

>PF09121 Tower: Tower; InterPro: IPR015205 This domain adopts a secondary structure consisting of a pair of long, antiparallel alpha-helices (the stem) that support a three-helix bundle (3HB) at their end	Back alignment and domain information

>PRK12366 replication factor A; Reviewed	Back alignment and domain information

>PRK07218 replication factor A; Provisional	Back alignment and domain information

>PRK07211 replication factor A; Reviewed	Back alignment and domain information

>PRK12366 replication factor A; Reviewed	Back alignment and domain information

>PF04057 Rep-A_N: Replication factor-A protein 1, N-terminal domain; InterPro: IPR007199 Replication factor-a protein 1 (RPA1) forms a multiprotein complex with RPA2 and RPA3 that binds single-stranded DNA and functions in the recognition of DNA damage for nucleotide excision repair	Back alignment and domain information

>PRK15491 replication factor A; Provisional	Back alignment and domain information

>cd04475 RPA1_DBD_B RPA1_DBD_B: A subfamily of OB folds corresponding to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70)	Back alignment and domain information

>cd04477 RPA1N RPA1N: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of human RPA1 (also called RPA70)	Back alignment and domain information

>PRK06386 replication factor A; Reviewed	Back alignment and domain information

>PRK07211 replication factor A; Reviewed	Back alignment and domain information

>cd04497 hPOT1_OB1_like hPOT1_OB1_like: A subfamily of OB folds similar to the first OB fold (OB1) of human protection of telomeres 1 protein (hPOT1), the single OB fold of the N-terminal domain of Schizosaccharomyces pombe POT1 (SpPOT1), and the first OB fold of the N-terminal domain of the alpha subunit (OB1Nalpha) of Oxytricha nova telomere end binding protein (OnTEBP)	Back alignment and domain information

>PRK15491 replication factor A; Provisional	Back alignment and domain information

>PRK14699 replication factor A; Provisional	Back alignment and domain information

>PRK14699 replication factor A; Provisional	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		1112
1miu_A		738	Structure Of A Brca2-dss1 Complex Length = 738		3e-58
1iyj_B		817	Structure Of A Brca2-Dss1 Complex Length = 817		1e-54
1mje_A		649	Structure Of A Brca2-Dss1-Ssdna Complex Length = 64		5e-43

>pdb|1MIU|A Chain A, Structure Of A Brca2-dss1 Complex Length = 738

Back alignment and structure

Iteration: 1

Score = 224 bits (570), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 160/478 (33%), Positives = 239/478 (50%), Gaps = 41/478 (8%) Query: 514 GAEALFNMLAQS-GASTQYASKLWVSNHYKWIVWKLACYERCYLAKSAGKFLTVFNVLEE 572 G E + L + G + S +WV+NHY+WIVWKLA E + + A + L VL + Sbjct: 140 GKEEFYRALCDTPGVDPKLISSIWVANHYRWIVWKLAAMEFAFPKEFANRCLNPERVLLQ 199 Query: 573 LKYRYEREVNNGHRSAIKRILEGDALPSSMMVLCISAIHMNCVPKIETHPEAQNGAENSY 632 LKYRY+ E++N RSA+K+ILE D + +VLCIS I ET +G + + Sbjct: 200 LKYRYDVEIDNSRRSALKKILERDDTAAKTLVLCISDIISPSTKVSETSGGKTSGEDANK 259 Query: 633 AAKLELTDGWYSVDAFLDVLLSKHLAAGKLFVGQKLRIWGAILCGWVGPVSPLEASGSIS 692 +ELTDGWY+V A LD L + +GKL VGQK+ GA L G +PLEA S+ Sbjct: 260 VDTIELTDGWYAVRAQLDPPLMALVKSGKLTVGQKIITQGAELVGSPDACAPLEAPDSLR 319 Query: 693 LQLNINGTYRAHWADRLGFCKGFGA-PLAFRCIKSNGGPVPRTLVGVTRIYPVLYKERLS 751 L+++ N T A W RLGF + PL + S+GG V + V R+YP+ + E+ Sbjct: 320 LKISANSTRPARWHSRLGFFRDPRPFPLPLSSLFSDGGNVGCVDIIVQRVYPLQWVEKTV 379 Query: 752 DGRSIVRSERMECKVMQLYQHRQSMVVEGIV----SEFQRGNKDS--------------- 792 G I RSER E K + Q +E + +EF+ +D+ Sbjct: 380 SGLYIFRSEREEEKEALRFAEAQQKKLEALFTKVHTEFKDHEEDTTQRCVLSRTLTRQQV 439 Query: 793 HILNDSNSEGAKLFKMLETVAEPEVIMAEMSPEQLTSFATYQAKLEATRQSNMERSIEKA 852 H L D GA+L+ ++ ++P+ + A S EQL + Y+ L +Q+ ++ KA Sbjct: 440 HALQD----GAELYAAVQYASDPDHLEACFSEEQLRALNNYRQMLNDKKQARIQSEFRKA 495 Query: 853 LENAGLRE---RDVTPFMRVRVVGLTGKNYQGKGSSREGIITIWNPAEKQQCELVEGQAY 909 LE+A E RDVT ++RV +Y+ K S +++IW P+ L EG+ Y Sbjct: 496 LESAEKEEGLSRDVTTVWKLRVT-----SYKKKEKS--ALLSIWRPSSDLSSLLTEGKRY 548 Query: 910 AILGLIPMNSDSN----TLYLQARGSTTKWQPLSPLATEHFKPFFSPRRSVLISNLGE 963 I L S S ++ L A T++Q L P+++E + PR S+ S L + Sbjct: 549 RIYHLAVSKSKSKFERPSIQLTA-TKRTQYQQL-PVSSETLLQVYQPRESLHFSRLSD 604

PyMOL of 1miu

>pdb|1IYJ|B Chain B, Structure Of A Brca2-Dss1 Complex Length = 817

Back alignment and structure

>pdb|1MJE|A Chain A, Structure Of A Brca2-Dss1-Ssdna Complex Length = 649

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
Query		1112
1miu_A		738	BRCA2, breast cancer type 2 susceptibility protein	1e-162
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-11
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-11
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-10
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07

>1miu_A BRCA2, breast cancer type 2 susceptibility protein; tumor suppressor, breast cancer susceptibility, DNA-binding; 3.10A {Mus musculus} SCOP: a.170.1.1 a.171.1.1 b.40.4.3 b.40.4.3 b.40.4.3 PDB: 1iyj_B 1mje_A Length = 738	Back alignment and structure

 Score =  496 bits (1277), Expect = e-162
 Identities = 184/703 (26%), Positives = 298/703 (42%), Gaps = 91/703 (12%)

Query: 464  QIPRMCVKEY-FGMPPSA----QGMLDHLQDQVRQMKSHNADKYMFHDA----------- 507
             +PR+ ++       PSA    Q  +  +  +   + S NA+ + F              
Sbjct: 61   TLPRISLQAAVGDRAPSACSPKQLYIYGVSKECINVNSKNAEYFQFDIQDHFGKEDLCAG 120

Query: 508  -------------SGLNCIGAEALFNMLAQS-GASTQYASKLWVSNHYKWIVWKLACYER 553
                         S     G E  +  L  + G   +  S +WV+NHY+WIVWKLA  E 
Sbjct: 121  KGFQLADGGWLIPSNDGKAGKEEFYRALCDTPGVDPKLISSIWVANHYRWIVWKLAAMEF 180

Query: 554  CYLAKSAGKFLTVFNVLEELKYRYEREVNNGHRSAIKRILEGDALPSSMMVLCISAIHMN 613
             +  + A + L    VL +LKYRY+ E++N  RSA+K+ILE D   +  +VLCIS I   
Sbjct: 181  AFPKEFANRCLNPERVLLQLKYRYDVEIDNSRRSALKKILERDDTAAKTLVLCISDIISP 240

Query: 614  CVPKIETHPEAQNGAENSYAAKLELTDGWYSVDAFLDVLLSKHLAAGKLFVGQKLRIWGA 673
                 ET     +G + +    +ELTDGWY+V A LD  L   + +GKL VGQK+   GA
Sbjct: 241  STKVSETSGGKTSGEDANKVDTIELTDGWYAVRAQLDPPLMALVKSGKLTVGQKIITQGA 300

Query: 674  ILCGWVGPVSPLEASGSISLQLNINGTYRAHWADRLGFCKGFGA-PLAFRCIKSNGGPVP 732
             L G     +PLEA  S+ L+++ N T  A W  RLGF +     PL    + S+GG V 
Sbjct: 301  ELVGSPDACAPLEAPDSLRLKISANSTRPARWHSRLGFFRDPRPFPLPLSSLFSDGGNVG 360

Query: 733  RTLVGVTRIYPVLYKERLSDGRSIVRSERMECKVMQLYQHRQSMVVEGIVSEFQRGNKDS 792
               + V R+YP+ + E+   G  I RSER E K    +   Q   +E + ++     KD 
Sbjct: 361  CVDIIVQRVYPLQWVEKTVSGLYIFRSEREEEKEALRFAEAQQKKLEALFTKVHTEFKDH 420

Query: 793  HILNDSN---------------SEGAKLFKMLETVAEPEVIMAEMSPEQLTSFATYQAKL 837
                                   +GA+L+  ++  ++P+ + A  S EQL +   Y+  L
Sbjct: 421  EEDTTQRCVLSRTLTRQQVHALQDGAELYAAVQYASDPDHLEACFSEEQLRALNNYRQML 480

Query: 838  EATRQSNMERSIEKALENAGLRE---RDVTPFMRVRVVGLTGKNYQGKGSSREGIITIWN 894
               +Q+ ++    KALE+A   E   RDVT   ++RV     K        +  +++IW 
Sbjct: 481  NDKKQARIQSEFRKALESAEKEEGLSRDVTTVWKLRVTSYKKKE-------KSALLSIWR 533

Query: 895  PAEKQQCELVEGQAYAILGLIPMNSDSN----TLYLQARGSTTKWQPLSPLATEHFKPFF 950
            P+      L EG+ Y I  L    S S     ++ L A    T++Q L P+++E     +
Sbjct: 534  PSSDLSSLLTEGKRYRIYHLAVSKSKSKFERPSIQLTATKR-TQYQQL-PVSSETLLQVY 591

Query: 951  SPRRSVLISNLGE---VPLSSEFDIAAFVVHVGDVYEDSQQKKQWVFVTDGSMLELQLED 1007
             PR S+  S L +    P  SE D+   VV V             V+++D  +       
Sbjct: 592  QPRESLHFSRLSDPAFQPPCSEVDVVGVVVSVVKPI----GLAPLVYLSDECL------- 640

Query: 1008 LSKSLLAISISSPYIDDDSFSPINYNLVGSTVGFCNLIKRPKDHLNHIWVAEATENSSYF 1067
               +LL +       +D              +   NL  +P +  + +    A   S + 
Sbjct: 641  ---NLLVVKFGIDLNEDIK--------PRVLIAASNLQCQP-ESTSGVPTLFAGHFSIFS 688

Query: 1068 LSFDFPTCSHLRSAAASAQSWAKISSLIIDKLKENVLFIIGDR 1110
             S   P  ++ +    + +   +       + ++ ++ ++   
Sbjct: 689  AS---PKEAYFQEKVNNLKHAIENIDTFYKEAEKKLIHVLEGD 728

PyMOL of 1miu

>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

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		1112
1miu_A		738	BRCA2, breast cancer type 2 susceptibility protein	100.0
1n0w_B		35	Breast cancer type 2 susceptibility protein; DNA r	97.83
1n0w_B		35	Breast cancer type 2 susceptibility protein; DNA r	97.56
1jmc_A		246	Protein (replication protein A (RPA)); human ssDNA	97.47
4gop_C		444	Putative uncharacterized protein; OB fold, ssDNA b	97.16
2b29_A		123	Replication protein A 70 kDa DNA-binding subunit;	92.76
2k50_A		115	Replication factor A related protein; uncharacteri	91.93
1xjv_A		294	Protection of telomeres 1; protein-DNA complex, si	85.87
2k50_A		115	Replication factor A related protein; uncharacteri	85.7
1xjv_A		294	Protection of telomeres 1; protein-DNA complex, si	85.31

>1miu_A BRCA2, breast cancer type 2 susceptibility protein; tumor suppressor, breast cancer susceptibility, DNA-binding; 3.10A {Mus musculus} SCOP: a.170.1.1 a.171.1.1 b.40.4.3 b.40.4.3 b.40.4.3 PDB: 1iyj_B 1mje_A	Back alignment and structure

Probab=100.00  E-value=4.5e-134  Score=1194.75  Aligned_cols=607  Identities=30%  Similarity=0.468  Sum_probs=522.1

Q ss_pred             cccchhhccC-CCCCccccc----cccccchhcccccCccceeeecC------------------------CCCcccCHH
Q 001266          466 PRMCVKEYFG-MPPSAQGML----DHLQDQVRQMKSHNADKYMFHDA------------------------SGLNCIGAE  516 (1112)
Q Consensus       466 ~R~~i~~~f~-~~~~~~~~~----~~v~~~v~~i~~~nA~~y~F~~~------------------------~~~~~~G~e  516 (1112)
                      +|.+|+++.+ -.|...+.+    .+|+++|++|+++||+.|.|+..                        +.++++|.+
T Consensus        63 ~r~~l~~~v~~~~p~~~~~~~L~~~gV~~~~~~i~s~na~~f~F~~~d~~~~e~~~~~~gi~l~dg~~l~~~~~g~~g~~  142 (738)
T 1miu_A           63 PRISLQAAVGDRAPSACSPKQLYIYGVSKECINVNSKNAEYFQFDIQDHFGKEDLCAGKGFQLADGGWLIPSNDGKAGKE  142 (738)
T ss_dssp             CCEETTGGGTSCSCCCCTTCSCSSSCCCSSSSSCCTTTTTTCCCCTHHHHTTTSTTCTTCEECTTSCEECCCTTSCCCHH
T ss_pred             cchhHHHHhCCCCCcccCHHHHHhcCCChHHeEecccccceeEEecccccchhhhcccCceecCCCceeecccCCcccHH
Confidence            6788888874 445444444    48999999999999999999752                        246788999


Q ss_pred             HHHHHHHh-CCCCccccCHhHHHHHHHHHHHHHhhhhhcccccccCCCCCHHHHHHHHHHHHHHHHhcCCCchhhhhHhC
Q 001266          517 ALFNMLAQ-SGASTQYASKLWVSNHYKWIVWKLACYERCYLAKSAGKFLTVFNVLEELKYRYEREVNNGHRSAIKRILEG  595 (1112)
Q Consensus       517 ef~~~L~~-~G~~~~l~~~~WV~NHyrwIVWKLA~~er~~P~~~~~~~lTp~~VL~QLkyRYerEi~~~~RSaLRrIlE~  595 (1112)
                      |||++|++ +|++|+|++++||.|||||||||||+|+++||..++++||||++||+||+|||++||++++||+||||+|+
T Consensus       143 E~~~~ll~~~Gv~p~l~~~~Wv~NhyrwIvWKLAsme~~~P~~~~~~~ltp~~VL~qL~yRY~rEi~~~~RsaLrrI~E~  222 (738)
T 1miu_A          143 EFYRALCDTPGVDPKLISSIWVANHYRWIVWKLAAMEFAFPKEFANRCLNPERVLLQLKYRYDVEIDNSRRSALKKILER  222 (738)
T ss_dssp             HHHHHHHHSTTCCTTSCCHHHHHHHHHHHHHHHHHTSTTCTTTCSSSSSSHHHHHHHHHHHHHHHTTSCCCCHHHHHHTT
T ss_pred             HHHHHHHhcCCCCcccCCHHHHHHHHHHHHHHHHHHHHhCChhhcccCCCHHHHHHHHHHHHHhhhcccCCcHHHHHHhc
Confidence            99999996 89999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCeEEEEEEeeeecCCCCcCCCccccCCCCCCcccEEEEeeceeEEeccccHHHHHHHHcCCcccCceEEEEccee
Q 001266          596 DALPSSMMVLCISAIHMNCVPKIETHPEAQNGAENSYAAKLELTDGWYSVDAFLDVLLSKHLAAGKLFVGQKLRIWGAIL  675 (1112)
Q Consensus       596 D~~~s~~MVLcVs~I~~~~~~~~e~~~~~~~g~~~~~~~~LELTDGWY~IkA~lD~~L~~~l~~GkI~vG~KL~I~GA~L  675 (1112)
                      |++|++||||||++|.+.+....++.+...+|++..+..+||||||||+|+|+||++|+++|++|||+||+||+|+||+|
T Consensus       223 D~~as~~mVLcVs~I~~~~~~~~e~~~~~~~~~~~~~~~~leLTDGWY~IkA~lD~~L~~~l~~GkI~vGqKL~I~GA~L  302 (738)
T 1miu_A          223 DDTAAKTLVLCISDIISPSTKVSETSGGKTSGEDANKVDTIELTDGWYAVRAQLDPPLMALVKSGKLTVGQKIITQGAEL  302 (738)
T ss_dssp             SSCCBCSEECEECCC----------------------CCCCCEECSSCEECCCCCHHHHHHHHTTCSCSSCBCCCSSBCE
T ss_pred             CCCcCCcEEEEEEEeecCCCccccccccccccccccccceEEEecCcEEEEEEeCHHHHHHHHcCCccCCceEEEECcee
Confidence            99999999999999986543222333333444445567899999999999999999999999999999999999999999


Q ss_pred             ccCCCCCCccccCCccEEEEEeeceeeccccCccccccCC-CCcccceeeccCCCeEeeEEEEEEEEccceEEEEccCCc
Q 001266          676 CGWVGPVSPLEASGSISLQLNINGTYRAHWADRLGFCKGF-GAPLAFRCIKSNGGPVPRTLVGVTRIYPVLYKERLSDGR  754 (1112)
Q Consensus       676 ~~~~~~~sPLEa~~~~~L~L~~NstrrA~W~akLGf~~~~-~~p~~L~sl~~~GG~V~~idVvV~RvyP~~y~Ek~~~G~  754 (1112)
                      +++.+||+|||++++++|+|++||||||+|++||||++++ +|+++|+||.++||+||||+|+|+|+||++|+|++.+|.
T Consensus       303 ~g~~~~~~PLEa~~s~~L~L~~NsTRrA~W~~kLGf~~~~~pf~~~Lssl~~~GG~V~~i~vvV~RvyP~~y~ek~~~g~  382 (738)
T 1miu_A          303 VGSPDACAPLEAPDSLRLKISANSTRPARWHSRLGFFRDPRPFPLPLSSLFSDGGNVGCVDIIVQRVYPLQWVEKTVSGL  382 (738)
T ss_dssp             ESCCSCCCTTSCCSSCEECCCGGGCCCBCSSCCSEECSCCSCCCCCGGGCCSSSCCEEEEEEEEEEECCCBCCEECSSSC
T ss_pred             ccCCCCCCCccCCCceEEEEeeccEeccccccccCcccCCCCccccHHHcccCCCEEEEEEEEEEEEcCceEEEEcCCCc
Confidence            9999999999999999999999999999999999999986 468999999999999999999999999999999999999


Q ss_pred             ccccCHHHHHHHHHHHH----HHHHHHHHhhHHHHhhcCCcc-------ccccc----CchhHHHHHHHHhccCChHHHH
Q 001266          755 SIVRSERMECKVMQLYQ----HRQSMVVEGIVSEFQRGNKDS-------HILND----SNSEGAKLFKMLETVAEPEVIM  819 (1112)
Q Consensus       755 ~i~Rner~E~k~~~~~~----~r~e~l~e~i~~E~ere~~~~-------~~~~~----~~s~Ga~l~~~le~~~dp~~l~  819 (1112)
                      +|+||||+|++++++|.    +++++++++|+.|||++++..       +..+.    ..+||++||++++.+.||++++
T Consensus       383 ~I~R~er~E~~~~~~~~~~~~~~~e~l~~kiq~Efe~~~e~~~~~~~~~~~lt~~~v~~l~dg~elye~~~~a~Dp~~~e  462 (738)
T 1miu_A          383 YIFRSEREEEKEALRFAEAQQKKLEALFTKVHTEFKDHEEDTTQRCVLSRTLTRQQVHALQDGAELYAAVQYASDPDHLE  462 (738)
T ss_dssp             EECCCTTHHHHHHHHHHHHTTTHHHHHHHHHHTTCC------------CCCTTHHHHHTTSSHHHHHHHHHSCSSSTTTT
T ss_pred             eEecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcccccccchhhhhhcccHHHHHHHHhccCChHHHH
Confidence            99999999999999997    457889999999999876421       22222    2259999999999999999999


Q ss_pred             hcCCHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHh----cCCCCCCceeeEEEEEeeccccccCCCCCCceEEEEEeCC
Q 001266          820 AEMSPEQLTSFATYQAKLEATRQSNMERSIEKALEN----AGLRERDVTPFMRVRVVGLTGKNYQGKGSSREGIITIWNP  895 (1112)
Q Consensus       820 ~~ls~~Ql~~l~~~r~~~~~~~Q~~~~~~i~~aL~~----~g~~~R~Vtp~~klRV~d~~~k~~~~k~~~~~aiLTIWrP  895 (1112)
                      ++||++|+++|++||+++++++|++++.+++++|+.    .+++ |+|||||||||+|++.     +  .++++||||||
T Consensus       463 ~~ls~eQ~~~l~~~~~~l~e~~q~~iq~e~~k~~e~~~~~~~~~-R~Vtp~~klRV~d~~~-----~--~k~~iLSIW~P  534 (738)
T 1miu_A          463 ACFSEEQLRALNNYRQMLNDKKQARIQSEFRKALESAEKEEGLS-RDVTTVWKLRVTSYKK-----K--EKSALLSIWRP  534 (738)
T ss_dssp             TSCCSSTTSSSTTTSHHHHHHHHHHHHHHHHHTHHHHTTTTTCC-CCBCCEEEEEEEESSS-----S--CCCEEEEEESC
T ss_pred             hhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCC-CccceeEEEEEEeccC-----C--CceEEEEEeCC
Confidence            999999999999999999999999999999998874    3565 9999999999999762     2  36999999999


Q ss_pred             ChhhhcccccccEEEEEeeecCCCCC----CceeEeeeecceeeeeCCccccccCCCCcCCcceecccccCC---CCCCC
Q 001266          896 AEKQQCELVEGQAYAILGLIPMNSDS----NTLYLQARGSTTKWQPLSPLATEHFKPFFSPRRSVLISNLGE---VPLSS  968 (1112)
Q Consensus       896 sedl~~~L~EG~ry~V~~L~ps~~~s----~~l~L~~r~~~Trw~~L~~~~~~~~~~~y~PR~~v~~s~l~~---~P~~~  968 (1112)
                      ++++.+.|+||++|+||||+|+.+++    ++++|+++ ++|+|++|+..+ +.+.+.|+||++++|++|++   +|+|+
T Consensus       535 ~edl~s~L~EG~~y~iy~L~~s~s~~~~~~~~lqLtAt-k~T~~~~L~~~~-~~~~~~~~pR~~~~~~~l~~~~f~p~~~  612 (738)
T 1miu_A          535 SSDLSSLLTEGKRYRIYHLAVSKSKSKFERPSIQLTAT-KRTQYQQLPVSS-ETLLQVYQPRESLHFSRLSDPAFQPPCS  612 (738)
T ss_dssp             CHHHHHHCCSSCEEEEEEECCCCCCCSSSCCSCEEEEE-EEEEEEEECCCH-HHHTTTCCCCCBCCSGGGGSSSCCTTTT
T ss_pred             ChHHHhhccCCcEEEEEEeeccCCCccCccceEEEeec-ccceeEECCcch-hhhccccCCcceeeHHHhcCccccCCCC
Confidence            99999999999999999999999875    57999997 589999999654 44667999999999999886   99999


Q ss_pred             ccceEEEEEEeCCcccccccceeEEEEecCcccccccccccCceEEEEeecCCcCCCCCCcccccccCceEEeeceEEec
Q 001266          969 EFDIAAFVVHVGDVYEDSQQKKQWVFVTDGSMLELQLEDLSKSLLAISISSPYIDDDSFSPINYNLVGSTVGFCNLIKRP 1048 (1112)
Q Consensus       969 EfD~vG~Vv~Vg~~~~~~~qk~QwvflaD~s~~~~~~~~~~~~lLaI~f~~~~~~~~sf~~~~~~~~G~vV~f~NL~~r~ 1048 (1112)
                      |||+|||||+|+..+    +++|||||+|+++          +||+|.||+++.+       | +++|.+||++||+||.
T Consensus       613 EvDivG~Vv~v~~~~----~~~~~vylsD~~~----------nll~Ikf~~~l~e-------D-~~~~~~va~sNL~~r~  670 (738)
T 1miu_A          613 EVDVVGVVVSVVKPI----GLAPLVYLSDECL----------NLLVVKFGIDLNE-------D-IKPRVLIAASNLQCQP  670 (738)
T ss_dssp             EEEEEEEEEEEECCT----TSCCEEEEECSSS----------CEEEEEESSCCCS-------C-CCSSCEEEEEEEECCS
T ss_pred             ceeEEEEEEEEcccC----cccceEEEEcCCC----------cEEEEEEecCchh-------h-CccccEEEEeeeEeec
Confidence            999999999998854    5889999999996          6999999999884       2 6789999999999998


Q ss_pred             cCCCCCeeEEEeccceeeEecCCCCCChhHHHHHHHHHHHHhhhhHHHHHHHHhHhhhhc
Q 001266         1049 KDHLNHIWVAEATENSSYFLSFDFPTCSHLRSAAASAQSWAKISSLIIDKLKENVLFIIG 1108 (1112)
Q Consensus      1049 ~D~~n~i~va~AtE~s~~sl~~~~~~~~~l~~a~~~l~~wa~~s~~~i~~lk~~v~~~~g 1108 (1112)
                      .+ ...|+++.|||+|+|+-+|..   .|+.+++..|+.--+.----...-.+++..+.+
T Consensus       671 ~~-~~~ip~~~a~~~t~fs~~pk~---~hl~~~~~~lk~~~~~~~~f~~~~~~~~~~~l~  726 (738)
T 1miu_A          671 ES-TSGVPTLFAGHFSIFSASPKE---AYFQEKVNNLKHAIENIDTFYKEAEKKLIHVLE  726 (738)
T ss_dssp             CC-SSSCCCEEECTTCEEESSCCC---TTTHHHHHHHTHHHHTTCSHHHHHHHHHHHHHC
T ss_pred             cc-cccCceEEeccceEEecCccH---hHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhc
Confidence            86 579999999999999999777   999999999888765544444555566666554

PyMOL of 1miu

>1n0w_B Breast cancer type 2 susceptibility protein; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: j.97.1.1	Back alignment and structure

>1n0w_B Breast cancer type 2 susceptibility protein; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: j.97.1.1	Back alignment and structure

>1jmc_A Protein (replication protein A (RPA)); human ssDNA binding replication protein A(RPA), single stranded DNA-binding protein, protein-ssDNA complex; HET: DNA; 2.40A {Homo sapiens} SCOP: b.40.4.3 b.40.4.3 PDB: 1fgu_A	Back alignment and structure

>4gop_C Putative uncharacterized protein; OB fold, ssDNA binding, DNA binding protein-DNA complex; HET: DNA; 3.10A {Ustilago maydis}	Back alignment and structure

>2b29_A Replication protein A 70 kDa DNA-binding subunit; 1.60A {Homo sapiens} SCOP: b.40.4.3 PDB: 2b3g_A 1ewi_A	Back alignment and structure

>2k50_A Replication factor A related protein; uncharacterized protein, structural genomics, PSI-2; NMR {Methanothermobacterthermautotrophicus str}	Back alignment and structure

>1xjv_A Protection of telomeres 1; protein-DNA complex, single-stranded DNA, transcription/DNA complex; 1.73A {Homo sapiens} SCOP: b.40.4.3 b.40.4.3 PDB: 3kjo_A 3kjp_A	Back alignment and structure

>2k50_A Replication factor A related protein; uncharacterized protein, structural genomics, PSI-2; NMR {Methanothermobacterthermautotrophicus str}	Back alignment and structure

>1xjv_A Protection of telomeres 1; protein-DNA complex, single-stranded DNA, transcription/DNA complex; 1.73A {Homo sapiens} SCOP: b.40.4.3 b.40.4.3 PDB: 3kjo_A 3kjp_A	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Alignment Graph	Length	Definition	E-value
Query		1112
d1iyjb3		133	b.40.4.3 (B:2599-2731) OB-fold domains of BRCA2 {R	4e-52
d1iyjb2		137	a.171.1.1 (B:2761-2897) BRCA2 tower domain {Rat (R	1e-32
d1iyjb1		196	a.170.1.1 (B:2403-2598) BRCA2 helical domain {Rat	6e-27

>d1iyjb3 b.40.4.3 (B:2599-2731) OB-fold domains of BRCA2 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 133	Back information, alignment and structure


class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: OB-fold domains of BRCA2
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  176 bits (449), Expect = 4e-52
 Identities = 52/136 (38%), Positives = 73/136 (53%), Gaps = 3/136 (2%)

Query: 586 RSAIKRILEGDALPSSMMVLCISAIHMNCVPKIETHPEAQNGAENSYAAKLELTDGWYSV 645
           RSA+K+ILE D   +  +VLC+S I        ET     +  +++    +ELTDGWY+V
Sbjct: 1   RSALKKILERDDTAAKTLVLCVSDIISLSTNVSETSGSKASSEDSNKVDTIELTDGWYAV 60

Query: 646 DAFLDVLLSKHLAAGKLFVGQKLRIWGAILCGWVGPVSPLEASGSISLQLNINGTYRAHW 705
            A LD  L   + +G+L VGQK+   GA L G     +PLEA  S+ L+++ N T  A W
Sbjct: 61  KAQLDPPLLALVKSGRLTVGQKIITQGAELVGSPDACAPLEAPDSLRLKISANSTRPARW 120

Query: 706 ADRLGFCKGFGAPLAF 721
             +LGF      P  F
Sbjct: 121 HSKLGFFHD---PRPF 133

PyMOL of d1iyjb3

>d1iyjb2 a.171.1.1 (B:2761-2897) BRCA2 tower domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 137	Back information, alignment and structure

>d1iyjb1 a.170.1.1 (B:2403-2598) BRCA2 helical domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 196	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
Query		1112
d1iyjb3		133	OB-fold domains of BRCA2 {Rat (Rattus norvegicus)	100.0
d1iyjb1		196	BRCA2 helical domain {Rat (Rattus norvegicus) [Tax	99.97
d1iyjb4		111	OB-fold domains of BRCA2 {Rat (Rattus norvegicus)	99.88
d1iyjb2		137	BRCA2 tower domain {Rat (Rattus norvegicus) [TaxId	99.82
d1iyjb5		138	OB-fold domains of BRCA2 {Rat (Rattus norvegicus)	99.78
d1mjea2		49	BRCA2 tower domain {Mouse (Mus musculus) [TaxId: 1	98.23
d1jmca2		122	Replication protein A 70 KDa subunit (RPA70) {Huma	94.93
d2b3ga1		112	Replication protein A 70 KDa subunit (RPA70) {Huma	93.34
d1xjva1		140	Protection of telomeres protein 1, Pot1 {Human (Ho	92.7

>d1iyjb3 b.40.4.3 (B:2599-2731) OB-fold domains of BRCA2 {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: OB-fold domains of BRCA2
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=7.2e-43  Score=340.26  Aligned_cols=131  Identities=38%  Similarity=0.567  Sum_probs=109.8

Q ss_pred             CchhhhhHhCCCCCCCeEEEEEEeeeecCCCCcCCCccccCCCCCCcccEEEEeeceeEEeccccHHHHHHHHcCCcccC
Q 001266          586 RSAIKRILEGDALPSSMMVLCISAIHMNCVPKIETHPEAQNGAENSYAAKLELTDGWYSVDAFLDVLLSKHLAAGKLFVG  665 (1112)
Q Consensus       586 RSaLRrIlE~D~~~s~~MVLcVs~I~~~~~~~~e~~~~~~~g~~~~~~~~LELTDGWY~IkA~lD~~L~~~l~~GkI~vG  665 (1112)
                      ||+||||+|+|++|++|||||||+|.+.+....++......+.+..+..+||||||||+|+|+||++|+++|++|||+||
T Consensus         1 RsalrkI~E~D~~~s~~mVLcVs~I~~~~~~~~~~~~~~~~~~~~~~~~~lelTDGWYsi~a~lD~~L~~~l~~grl~vG   80 (133)
T d1iyjb3           1 RSALKKILERDDTAAKTLVLCVSDIISLSTNVSETSGSKASSEDSNKVDTIELTDGWYAVKAQLDPPLLALVKSGRLTVG   80 (133)
T ss_dssp             CCHHHHHHTTSSTTCCSEEEEEEECCCCC-----------------CCCCEEEECSSCEEEECCCHHHHHHHHHTCSCTT
T ss_pred             CcHHHHHHhCCCCccCcEEEEEEEeeccCCccccccccccccccccccceEEEecCCEEEEEEcCHHHHHHHHcCCcccc
Confidence            89999999999999999999999998754222222211122223456778999999999999999999999999999999


Q ss_pred             ceEEEEcceeccCCCCCCccccCCccEEEEEeeceeeccccCccccccCCC
Q 001266          666 QKLRIWGAILCGWVGPVSPLEASGSISLQLNINGTYRAHWADRLGFCKGFG  716 (1112)
Q Consensus       666 ~KL~I~GA~L~~~~~~~sPLEa~~~~~L~L~~NstrrA~W~akLGf~~~~~  716 (1112)
                      |||+|+||+|+++.++|+|||++++++|+||+||||||+|++|||||++|.
T Consensus        81 qKL~i~GA~L~g~~~~~sPLE~~~s~~L~i~~Nstr~a~w~~kLGf~~~p~  131 (133)
T d1iyjb3          81 QKIITQGAELVGSPDACAPLEAPDSLRLKISANSTRPARWHSKLGFFHDPR  131 (133)
T ss_dssp             CEEEESCCEEESCCSCCCGGGCCSSCEEECCTTTEEECCSSSCSEECSCCS
T ss_pred             ceEEEECcEeecCCCCcCcccccCccEEEEeecceeeccccccCcccCCCC
Confidence            999999999999999999999999999999999999999999999999753

PyMOL of d1iyjb3

>d1iyjb1 a.170.1.1 (B:2403-2598) BRCA2 helical domain {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1iyjb4 b.40.4.3 (B:2732-2760,B:2898-2979) OB-fold domains of BRCA2 {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1iyjb2 a.171.1.1 (B:2761-2897) BRCA2 tower domain {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1iyjb5 b.40.4.3 (B:2980-3117) OB-fold domains of BRCA2 {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1mjea2 a.171.1.1 (A:2752-2887) BRCA2 tower domain {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1jmca2 b.40.4.3 (A:299-420) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2b3ga1 b.40.4.3 (A:3-114) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1xjva1 b.40.4.3 (A:6-145) Protection of telomeres protein 1, Pot1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure