Citrus Sinensis ID: 004237

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------
MKLSTSGLCQQGHEGDNKCLNSELWHACAGPLVSLPTVGTRVVYFPQGHSEQVAATTNKEVDSHIPNYPNLPPQLICQLHNVTMHADVETDEVYAQMTLQPLSPEEQKDTFVPIELGIPSKQPTNYFCKTLTASDTSTHGGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIRRAIRPPTVMPSSVLSSDSMHIGLLAAAAHAAATNSCFTVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWSNSHWRSVKVGWDESTAGERQPRVSLWEIEPLTTFPMYPSLFPLRLKRPWHPSTSSFNDNRDETASGLNWLRGGTGEQGLTTLNFQSLGMFPWMQQRVEPSFLGNDHNQQYQAMLAAGMQSGDPVRQQFMQLQQPFQYLQQSGSQNPLQLKQQQHLLQQLNSQAEDRAQQQQQPQQHMYHDALQIRTDELLQRQQSNLPSPSFSKANFMDSSTEISVSISPMQNMLGSLPEGSGNLLNFSGAGPSMLRQQFPQQSLGSKYEPSQVRDFVHSMSLPSSYNGKDAAVGTENCNTDSQNSVVFGVHIDSSGLLLPTTVSSFTTSVDPGVSSMPLGDSGFHNSMYGCMQDSSELLHNVGQIDQLTPTRTFVKVYKSGSVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLGDDPWEIVLPIPV
cccccccccccccccccccccHHHHHHcccccccccccccEEEEcccHHHHHHHccccHHHcccccccccccccccEEEEEEEEccccccccEEEEEEEccccccccccccccccccccccccccEEEEEEEccccccccccccccccHHHccccccccccccccEEEEEEcccccEEEEEEEccccccccccccccccccccccccccEEEEEEcccccEEEEEEEEccccccccccccccccccccHHHHHHHHHcccccEEEEEccccccccccccHHHHHHHHHHcccccccEEEEEEccccccEEEEEEEEEEEcccccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccHHHccccccccccccccccccHHHHHHHHHHHHHHHHcccHHHHcccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEccccccEEEccccccHHHHHHHHHHHHccccccccccccccEEEEEEccccEEEcccccccccccccc
cccccccccccccccccccHHHHHHHHHcccccEccccccEEEEcccccHHHHHHHccccHHccccccccccccEEEEEEEEEEEccccccEEEEEEEEccccccccccccccccccccccccccHEEEEEccccccccccccHHHHHHHHHcccccccccccHHHHHHHHHcccEEEEEEEEccccccEEEccccEEEEEccEEEcccEEEEEEcccccEEEEEEEcccccccccccEEccccHHHHHHHHHHHHHHccccEEEEEccccccccEEEEHHHHHHHHHccccEEEEEEEEEEcccccccEEEcEEEEEccccccccccccccEEEEEEccccccccccccccccEEcccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEcccccEEEEEEccccHHHHHHHHHHHHccccEcccccccccEEEEEcccccEEEEccccccEEccccc
mklstsglcqqghegdnkclnselwhacagplvslptvgtrvvyfpqghseqvAATTnkevdshipnypnlppqlicqlhnvtmhadvetDEVYAQmtlqplspeeqkdtfvpielgipskqptnyfcktltasdtsthggfsvprraaekvfpsldfslqppaQELIARDLHDVEWKFrhifrgqpkrhlltTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIrrairpptvmpssvlssdSMHIGLLAAAAHAAATnscftvffnpraspsefvipLTKYVKAVFHTRVSVGMRFRMLFETEESSVRRYMgtitgisdldpvrwsnshwrsvkvgwdestagerqprvslweieplttfpmypslfplrlkrpwhpstssfndnrdetasglnwlrggtgeqglttlnfqslgmfpwmqqrvepsflgndHNQQYQAMLAAGMQSGDPVRQQFMQlqqpfqylqqsgsqnplqLKQQQHLLQQLNSQAEDRAQqqqqpqqhmyHDALQIRTDELLQRqqsnlpspsfskanfmdsstEISVSISPmqnmlgslpegsgnllnfsgagpsmlrqqfpqqslgskyepsqvrdfvhsmslpssyngkdaavgtencntdsqnsVVFGVhidssglllpttvssfttsvdpgvssmplgdsgfhnsmygcmqdssellhnvgqidqltptrTFVKVYksgsvgrsldisRFSSYNELREELGQmfgiegkfedplrsgwqlVFVDRendvlllgddpweivlpipv
mklstsglcqqghegDNKCLNSELWHACAGPLVSLPTVGTRVVYFPQGHSEQVAATTNKEVDSHIPNYPNLPPQLICQLHNVTMHADVETDEVYAQMTLQPLSPEEQKDTFVPIELgipskqptNYFCKTLTASDTSTHGGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVEWKFRHIfrgqpkrhllTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIRRAIRPPTVMPSSVLSSDSMHIGLLAAAAHAAATNSCFTVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRMLFETEESSVRRYMGTItgisdldpvrwsNSHWRSvkvgwdestagerqprvslweieplttFPMYPSLFPLRLKRPWHPstssfndnrdETASGLNWLRGGTGEQGLTTLNFQSLGMFPWMQQRVEPSFLGNDHNQQYQAMLAAGMQSGDPVRQQFMQLQQPFQYLQQSGSQNPLQLKQQQHLLQQLNSQAEDRAQQQQQPQQHMYHDALQIRTDELLQRQQSNLPSPSFSKANFMDSSTEISVSISPMQNMLGSLPEGSGNLLNFSGAGPSMLRQQFPQQSLGSKYEPSQVRDFVHSMSLPSSYNGKDAAVGTENCNTDSQNSVVFGVHIDSSGLLLPTTVSSFTTSVDPGVSSMPLGDSGFHNSMYGCMQDSSELLHNVGQIDQLTPTRTFVKvyksgsvgrsldisRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVlllgddpweivlpipv
MKLSTSGLCQQGHEGDNKCLNSELWHACAGPLVSLPTVGTRVVYFPQGHSEQVAATTNKEVDSHIPNYPNLPPQLICQLHNVTMHADVETDEVYAQMTLQPLSPEEQKDTFVPIELGIPSKQPTNYFCKTLTASDTSTHGGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIRRAIRPPTVMPSSVLSSDSMHIGLLaaaahaaaTNSCFTVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWSNSHWRSVKVGWDESTAGERQPRVSLWEIEPLTTFPMYPSLFPLRLKRPWHPSTSSFNDNRDETASGLNWLRGGTGEQGLTTLNFQSLGMFPWMQQRVEPSFLGNDHNQQYQAMLAAGMQSGDPVRqqfmqlqqpfqylqqsgsqnplqlkqqqhllqqlnsqAEDRAqqqqqpqqHMYHDALQIRTDELLQRQQSNLPSPSFSKANFMDSSTEISVSISPMQNMLGSLPEGSGNLLNFSGAGPSMLRQQFPQQSLGSKYEPSQVRDFVHSMSLPSSYNGKDAAVGTENCNTDSQNSVVFGVHIDSSGLLLPTTVSSFTTSVDPGVSSMPLGDSGFHNSMYGCMQDSSELLHNVGQIDQLTPTRTFVKVYKSGSVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLGDDPWEIVLPIPV
*****************KCLNSELWHACAGPLVSLPTVGTRVVYFPQGHSEQVAA*****VDSHIPNYPNLPPQLICQLHNVTMHADVETDEVYAQMTL**********TFVPIELGIPSKQPTNYFCKTLTAS*******F********KVFPSLDFSLQPPAQELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIRRAIRPPTVMPSSVLSSDSMHIGLLAAAAHAAATNSCFTVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWSNSHWRSVKVGWDESTAGERQPRVSLWEIEPLTTFPMYPSLFPLRLKRPW****************GLNWLRGGTGEQGLTTLNFQSLGMFPWMQQRVEPSFLG***********************************************************************************************************************************************************************************************NSVVFGVHIDSSGLLLPTTVSSFTT***************FHNSMYGCMQDSSELLHNVGQIDQLTPTRTFVKVYKSGSVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLGDDPWEIVLP***
*********************SELWHACAGPLVSLPTVGTRVVYFPQGHSEQVA*************YPNLPPQLICQLHNVTMHADVETDEVYAQMTLQP************************YFCKTLTASDTSTHGGFSVPRRAAEKVFPSLD******A**LIARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIRRAI**********************AAAHAAATNSCFTVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWSNSHWRSVKVGWDESTAGERQPRVSLWEIEPLTT**************************************************************************************************************************************************************************************************************************************************************************************************************************************************GSVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLGDDPWEIVLPIPV
MKLSTSGLCQQGHEGDNKCLNSELWHACAGPLVSLPTVGTRVVYFPQGHSEQVAATTNKEVDSHIPNYPNLPPQLICQLHNVTMHADVETDEVYAQMTLQPLSPEEQKDTFVPIELGIPSKQPTNYFCKTLTASDTSTHGGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIRRAIRPPTVMPSSVLSSDSMHIGLLAAAAHAAATNSCFTVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWSNSHWRSVKVGWDESTAGERQPRVSLWEIEPLTTFPMYPSLFPLRLKRPWHPSTSSFNDNRDETASGLNWLRGGTGEQGLTTLNFQSLGMFPWMQQRVEPSFLGNDHNQQYQAMLAAGMQSGDPVRQQFMQLQQPFQYLQQSGSQNPLQLKQQQHLLQQLN****************MYHDALQIRTDELLQRQQSNLPSPSFSKANFMDSSTEISVSISPMQNMLGSLPEGSGNLLNFSGAGPSMLRQQ***********PSQVRDFVHSMSLPSSYNGKDAAVGTENCNTDSQNSVVFGVHIDSSGLLLPTTVSSFTTSVDPGVSSMPLGDSGFHNSMYGCMQDSSELLHNVGQIDQLTPTRTFVKVYKSGSVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLGDDPWEIVLPIPV
****************NKCLNSELWHACAGPLVSLPTVGTRVVYFPQGHSEQVAATTNKEVDSHIPNYPNLPPQLICQLHNVTMHADVETDEVYAQMTLQPLS******TFVPIEL**PSKQPTNYFCKTLTASD****GGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIRRAIRPPTVMPSSVLSSDSMHIGLLAAAAHAAATNSCFTVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWSNSHWRSVKVGWDESTAGERQPRVSLWEIEPLTTFPMYPSLFPLRLKRPW******F******TASGL**LRGGTGEQGLTTLNFQSLGMFPWMQQRVEPSFLGNDHNQQYQAMLAAGM**************************************************************************************************************************************************************************************************************************************************PTRTFVKVYKSGSVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLGDDPWEIVLPIPV
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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iiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MKLSTSGLCQQGHEGDNKCLNSELWHACAGPLVSLPTVGTRVVYFPQGHSEQVAATTNKEVDSHIPNYPNLPPQLICQLHNVTMHADVETDEVYAQMTLQPLSPEEQKDTFVPIELGIPSKQPTNYFCKTLTASDTSTHGGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIRRAIRPPTVMPSSVLSSDSMHIGLLAAAAHAAATNSCFTVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWSNSHWRSVKVGWDESTAGERQPRVSLWEIEPLTTFPMYPSLFPLRLKRPWHPSTSSFNDNRDETASGLNWLRGGTGEQGLTTLNFQSLGMFPWMQQRVEPSFLGNDHNQQYQAMLAAGMQSGDPVRQQFMQLQQPFQYLQQSGSQNPLQxxxxxxxxxxxxxxxxxxxxxQQQPQQHMYHDALQIRTDELLQRQQSNLPSPSFSKANFMDSSTEISVSISPMQNMLGSLPEGSGNLLNFSGAGPSMLRQQFPQQSLGSKYEPSQVRDFVHSMSLPSSYNGKDAAVGTENCNTDSQNSVVFGVHIDSSGLLLPTTVSSFTTSVDPGVSSMPLGDSGFHNSMYGCMQDSSELLHNVGQIDQLTPTRTFVKVYKSGSVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLGDDPWEIVLPIPV
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 ?
Query766 2.2.26 [Sep-21-2011]
Q9FGV1811 Auxin response factor 8 O yes no 0.960 0.907 0.701 0.0
Q258Y5816 Auxin response factor 12 N/A no 0.949 0.890 0.633 0.0
Q0J951818 Auxin response factor 12 yes no 0.949 0.888 0.631 0.0
Q9ZTX8 935 Auxin response factor 6 O no no 0.575 0.471 0.795 0.0
Q6H6V4 908 Auxin response factor 6 O no no 0.582 0.491 0.795 0.0
A2X1A1 908 Auxin response factor 6 O N/A no 0.582 0.491 0.795 0.0
Q653U3 917 Auxin response factor 17 no no 0.578 0.483 0.789 0.0
A2YG67 917 Auxin response factor 17 N/A no 0.578 0.483 0.789 0.0
Q2QM84 899 Auxin response factor 25 no no 0.609 0.519 0.743 0.0
A3B9A0 1055 Auxin response factor 16 no no 0.548 0.398 0.651 1e-151
>sp|Q9FGV1|ARFH_ARATH Auxin response factor 8 OS=Arabidopsis thaliana GN=ARF8 PE=2 SV=2 Back     alignment and function desciption
 Score = 1041 bits (2693), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 558/796 (70%), Positives = 625/796 (78%), Gaps = 60/796 (7%)

Query: 1   MKLSTSGLCQQGHEGDNKCLNSELWHACAGPLVSLPTVGTRVVYFPQGHSEQVAATTNKE 60
           MKLSTSGL QQGHEG+ KCLNSELWHACAGPLVSLP+ G+RVVYFPQGHSEQVAATTNKE
Sbjct: 1   MKLSTSGLGQQGHEGE-KCLNSELWHACAGPLVSLPSSGSRVVYFPQGHSEQVAATTNKE 59

Query: 61  VDSHIPNYPNLPPQLICQLHNVTMHADVETDEVYAQMTLQPLSPEEQKDTFVPIELGIPS 120
           VD HIPNYP+LPPQLICQLHNVTMHADVETDEVYAQMTLQPL+PEEQK+TFVPIELGIPS
Sbjct: 60  VDGHIPNYPSLPPQLICQLHNVTMHADVETDEVYAQMTLQPLTPEEQKETFVPIELGIPS 119

Query: 121 KQPTNYFCKTLTASDTSTHGGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVEWKFR 180
           KQP+NYFCKTLTASDTSTHGGFSVPRRAAEKVFP LD++LQPPAQELIARDLHDVEWKFR
Sbjct: 120 KQPSNYFCKTLTASDTSTHGGFSVPRRAAEKVFPPLDYTLQPPAQELIARDLHDVEWKFR 179

Query: 181 HIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIRRAIRPPTVMPSSVL 240
           HIFRGQPKRHLLTTGWSVFVSAKRLVAGDSV+FI NEKNQL LGIR A RP T++PSSVL
Sbjct: 180 HIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVIFIRNEKNQLFLGIRHATRPQTIVPSSVL 239

Query: 241 SSDSMHIGLLAAAAHAAATNSCFTVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRM 300
           SSDSMHIGLLAAAAHA+ATNSCFTVFF+PRAS SEFVI L+KY+KAVFHTR+SVGMRFRM
Sbjct: 240 SSDSMHIGLLAAAAHASATNSCFTVFFHPRASQSEFVIQLSKYIKAVFHTRISVGMRFRM 299

Query: 301 LFETEESSVRRYMGTITGISDLDPVRWSNSHWRSVKVGWDESTAGERQPRVSLWEIEPLT 360
           LFETEESSVRRYMGTITGISDLD VRW NSHWRSVKVGWDESTAGERQPRVSLWEIEPLT
Sbjct: 300 LFETEESSVRRYMGTITGISDLDSVRWPNSHWRSVKVGWDESTAGERQPRVSLWEIEPLT 359

Query: 361 TFPMYPSLFPLRLKRPWHPSTSSFNDNRDETASGLNWLRGGTGEQGLTT-LNFQSLGMFP 419
           TFPMYPSLFPLRLKRPWH  TSS  D R +  SGL WLRGG GEQ     LN+ S+G+FP
Sbjct: 360 TFPMYPSLFPLRLKRPWHAGTSSLPDGRGDLGSGLTWLRGGGGEQQGLLPLNYPSVGLFP 419

Query: 420 WMQQRVEPSFLGNDHNQQYQAMLAAGMQS---GDPVRQQFMQLQQP-FQYLQQSGSQNP- 474
           WMQQR++ S +G D+NQQYQAMLAAG+Q+   GDP+RQQF+QLQ+P  QYLQQS S N  
Sbjct: 420 WMQQRLDLSQMGTDNNQQYQAMLAAGLQNIGGGDPLRQQFVQLQEPHHQYLQQSASHNSD 479

Query: 475 LQLKQ------QQHLLQQLNSQAEDRAQQQQQPQQHM----------------------Y 506
           L L+Q       +HL+      A+ +   +  PQQ+M                      Y
Sbjct: 480 LMLQQQQQQQASRHLM-----HAQTQIMSENLPQQNMRQEVSNQPAGQQQQLQQPDQNAY 534

Query: 507 HDALQIRTDELLQ-RQQSNLPSPSFSKANFMDSSTEISVSISPMQNMLGSLPEGSGNLLN 565
            +A +++   L Q +QQS +PSPSF K++F DSS + + + SP          G GNLLN
Sbjct: 535 LNAFKMQNGHLQQWQQQSEMPSPSFMKSDFTDSSNKFATTASPA--------SGDGNLLN 586

Query: 566 FSGAGPSMLRQQFPQQSLGSKYEPSQVRDFVHSMSLPSSYNGKDAAVGTENCNTDSQNSV 625
           FS  G S+L    P+Q     + P     F   +SLP +Y GK  A+   N     QN  
Sbjct: 587 FSITGQSVL----PEQLTTEGWSPKASNTFSEPLSLPQAYPGKSLALEPGN----PQNPS 638

Query: 626 VFGVHIDSSGLLLPTTVSSF-TTSVDPGVSSMPLGDSGFHNSMYGCMQDSS-ELLHNVGQ 683
           +FGV  D SGL LP+TV  F ++S D   S M L DSGF NS+Y CMQD++ ELLH  GQ
Sbjct: 639 LFGVDPD-SGLFLPSTVPRFASSSGDAEASPMSLTDSGFQNSLYSCMQDTTHELLHGAGQ 697

Query: 684 IDQLTPTRTFVKVYKSGSVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVF 743
           I+    T+ FVKVYKSGSVGRSLDISRFSSY+ELREELG+MF IEG  EDPLRSGWQLVF
Sbjct: 698 INSSNQTKNFVKVYKSGSVGRSLDISRFSSYHELREELGKMFAIEGLLEDPLRSGWQLVF 757

Query: 744 VDRENDVLLLGDDPWE 759
           VD+END+LLLGDDPWE
Sbjct: 758 VDKENDILLLGDDPWE 773
Auxin response factors (ARFs) are transcriptional factors that binds specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Seems to act as transcriptional activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Regulates both stamen and gynoecium maturation. Promotes jasmonic acid production. Partially redundant with ARF6. Involved in fruit initiation. Acts as an inhibitor to stop further carpel development in the absence of fertilization and the generation of signals required to initiate fruit and seed development.
Arabidopsis thaliana (taxid: 3702)
>sp|Q258Y5|ARFL_ORYSI Auxin response factor 12 OS=Oryza sativa subsp. indica GN=ARF12 PE=2 SV=1 Back     alignment and function description
>sp|Q0J951|ARFL_ORYSJ Auxin response factor 12 OS=Oryza sativa subsp. japonica GN=ARF12 PE=2 SV=1 Back     alignment and function description
>sp|Q9ZTX8|ARFF_ARATH Auxin response factor 6 OS=Arabidopsis thaliana GN=ARF6 PE=1 SV=2 Back     alignment and function description
>sp|Q6H6V4|ARFF_ORYSJ Auxin response factor 6 OS=Oryza sativa subsp. japonica GN=ARF6 PE=1 SV=1 Back     alignment and function description
>sp|A2X1A1|ARFF_ORYSI Auxin response factor 6 OS=Oryza sativa subsp. indica GN=ARF6 PE=2 SV=1 Back     alignment and function description
>sp|Q653U3|ARFQ_ORYSJ Auxin response factor 17 OS=Oryza sativa subsp. japonica GN=ARF17 PE=2 SV=1 Back     alignment and function description
>sp|A2YG67|ARFQ_ORYSI Auxin response factor 17 OS=Oryza sativa subsp. indica GN=ARF17 PE=2 SV=1 Back     alignment and function description
>sp|Q2QM84|ARFY_ORYSJ Auxin response factor 25 OS=Oryza sativa subsp. japonica GN=ARF25 PE=2 SV=1 Back     alignment and function description
>sp|A3B9A0|ARFP_ORYSJ Auxin response factor 16 OS=Oryza sativa subsp. japonica GN=ARF16 PE=2 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query766
224079698827 predicted protein [Populus trichocarpa] 0.985 0.912 0.772 0.0
359476473846 PREDICTED: auxin response factor 8-like 0.993 0.899 0.780 0.0
356500980846 PREDICTED: auxin response factor 8-like 0.988 0.894 0.764 0.0
255570473826 Auxin response factor, putative [Ricinus 0.993 0.921 0.776 0.0
356553218842 PREDICTED: auxin response factor 8-like 0.989 0.900 0.760 0.0
224134659799 predicted protein [Populus trichocarpa] 0.955 0.916 0.773 0.0
356539752843 PREDICTED: auxin response factor 8-like 0.989 0.899 0.753 0.0
357491655841 Auxin response factor [Medicago truncatu 0.988 0.900 0.752 0.0
449506738854 PREDICTED: auxin response factor 8-like 0.984 0.882 0.733 0.0
402746980820 auxin response factor 1 [Camellia sinens 0.977 0.913 0.759 0.0
>gi|224079698|ref|XP_002305917.1| predicted protein [Populus trichocarpa] gi|222848881|gb|EEE86428.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score = 1213 bits (3138), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 615/796 (77%), Positives = 678/796 (85%), Gaps = 41/796 (5%)

Query: 1   MKLSTSGLCQQGHEGDNKCLNSELWHACAGPLVSLPTVGTRVVYFPQGHSEQVAATTNKE 60
           MKLSTSGL  Q   G+ KCLNSELWHACAGPLVSLPT G+RVVYFPQGHSEQVAATTNKE
Sbjct: 1   MKLSTSGLGGQ-QAGEKKCLNSELWHACAGPLVSLPTAGSRVVYFPQGHSEQVAATTNKE 59

Query: 61  VDSHIPNYPNLPPQLICQLHNVTMHADVETDEVYAQMTLQPLSPEEQKDTFVPIELGIPS 120
           VD+HIPNYP+LPPQLICQLHNVTMHADVETDEVYAQMTLQPL+P+EQK+TF+P++LG+PS
Sbjct: 60  VDAHIPNYPSLPPQLICQLHNVTMHADVETDEVYAQMTLQPLTPQEQKETFLPMDLGMPS 119

Query: 121 KQPTNYFCKTLTASDTSTHGGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVEWKFR 180
           KQPTNYFCKTLTASDTSTHGGFSVPRRAAEKVFP LDF+ QPPAQELIARDLHDVEWKFR
Sbjct: 120 KQPTNYFCKTLTASDTSTHGGFSVPRRAAEKVFPPLDFTQQPPAQELIARDLHDVEWKFR 179

Query: 181 HIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIRRAIRPPTVMPSSVL 240
           HIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIRRA RP TVMPSSVL
Sbjct: 180 HIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIRRATRPQTVMPSSVL 239

Query: 241 SSDSMHIGLLAAAAHAAATNSCFTVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRM 300
           SSDSMHIGLLAAAAHAAATNSCFTVF+NPRASPSEFVIPL+KYVKAVFHTR+SVGMRFRM
Sbjct: 240 SSDSMHIGLLAAAAHAAATNSCFTVFYNPRASPSEFVIPLSKYVKAVFHTRISVGMRFRM 299

Query: 301 LFETEESSVRRYMGTITGISDLDPVRWSNSHWRSVKVGWDESTAGERQPRVSLWEIEPLT 360
           LFETEESSVRRYMGTITGISDLDPVRW NSHWRSVKVGWDESTAGERQPRVSLWEIEPLT
Sbjct: 300 LFETEESSVRRYMGTITGISDLDPVRWPNSHWRSVKVGWDESTAGERQPRVSLWEIEPLT 359

Query: 361 TFPMYPSLFPLRLKRPWHPSTSSFNDNRDETASGLNWLRGGTGEQGLTTLNFQSLGMFPW 420
           TFPMYPSLFPLRLKRPWHP + S  D+RDE ++GL WLRGG+GE GL +LNFQ+  M PW
Sbjct: 360 TFPMYPSLFPLRLKRPWHPGSPSLLDSRDEASNGLMWLRGGSGEPGLPSLNFQA-NMLPW 418

Query: 421 MQQRVEPSFLGNDHNQQYQAMLAAGMQ---SGDPVRQQFMQLQQPFQYLQQSGSQNP--- 474
           MQQR++P+ LGNDHNQ+YQAMLAAGMQ   SGDP+RQQFMQLQQPFQYLQQS   NP   
Sbjct: 419 MQQRLDPTMLGNDHNQRYQAMLAAGMQNLGSGDPLRQQFMQLQQPFQYLQQSSGHNPLLQ 478

Query: 475 ------------------LQLKQQ-------QHLL-QQLNSQAEDRAQQQQQPQQHMYHD 508
                             LQ + Q       +HLL QQLN+Q  D+A Q     QH+YHD
Sbjct: 479 LQQQQQQQAIQQSIPHNILQAQNQISTESLPRHLLQQQLNNQPGDQAHQ----HQHIYHD 534

Query: 509 ALQIRTDELLQRQQSNLPSPSFSKANFMDSSTEISVSISPMQNMLGSL-PEGSGNLLNFS 567
            LQI+TD+ LQRQQSNLPSPSFSK  +MDSS++ S + +PMQNMLGSL  EGS NLL+FS
Sbjct: 535 GLQIQTDQ-LQRQQSNLPSPSFSKTEYMDSSSKFSATNTPMQNMLGSLCSEGSVNLLDFS 593

Query: 568 GAGPSMLRQQFPQQSLGSKYEPSQVRDFVHSMSLPSSYNGKDAAVGTENCNTDSQNSVVF 627
            AG S L +Q PQQS   KY   +V  F +S+SLP +Y  KD ++  ENC++D+QN  +F
Sbjct: 594 RAGQSTLTEQLPQQSWVPKYAHQEVNAFANSISLPRTYPEKDPSMEAENCSSDAQNPTLF 653

Query: 628 GVHIDSSGLLLPTTVSSF-TTSVDPGVSSMPLGDSGFHNSMYGCMQDSSELLHNVGQIDQ 686
           G +IDSSGLLLPTTV  + T+S+D  VSSMPLGDSGF NS+YGC+QDSSELL N GQ+D 
Sbjct: 654 GANIDSSGLLLPTTVPRYSTSSIDADVSSMPLGDSGFQNSLYGCVQDSSELLSNAGQMDP 713

Query: 687 LTPTRTFVKVYKSGSVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDR 746
            TP+ TFVKVYKSGSVGRSLDISRFSSY+ELR EL QMFGIEGK E+P RSGWQLVFVDR
Sbjct: 714 PTPSGTFVKVYKSGSVGRSLDISRFSSYHELRGELAQMFGIEGKLENPHRSGWQLVFVDR 773

Query: 747 ENDVLLLGDDPWEIVL 762
           ENDVLLLGDDPWE+ +
Sbjct: 774 ENDVLLLGDDPWELFV 789

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359476473|ref|XP_002266678.2| PREDICTED: auxin response factor 8-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|356500980|ref|XP_003519308.1| PREDICTED: auxin response factor 8-like [Glycine max] Back     alignment and taxonomy information
>gi|255570473|ref|XP_002526195.1| Auxin response factor, putative [Ricinus communis] gi|223534499|gb|EEF36199.1| Auxin response factor, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356553218|ref|XP_003544955.1| PREDICTED: auxin response factor 8-like [Glycine max] Back     alignment and taxonomy information
>gi|224134659|ref|XP_002327459.1| predicted protein [Populus trichocarpa] gi|222836013|gb|EEE74434.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356539752|ref|XP_003538358.1| PREDICTED: auxin response factor 8-like [Glycine max] Back     alignment and taxonomy information
>gi|357491655|ref|XP_003616115.1| Auxin response factor [Medicago truncatula] gi|355517450|gb|AES99073.1| Auxin response factor [Medicago truncatula] Back     alignment and taxonomy information
>gi|449506738|ref|XP_004162834.1| PREDICTED: auxin response factor 8-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|402746980|gb|AFQ94050.1| auxin response factor 1 [Camellia sinensis] 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 ?
Query766
TAIR|locus:2152642811 ARF8 "auxin response factor 8" 0.590 0.557 0.849 9.2e-277
TAIR|locus:2204237 935 ARF6 "auxin response factor 6" 0.590 0.483 0.772 1.2e-234
TAIR|locus:2202205 1086 ARF19 "auxin response factor 1 0.580 0.409 0.582 4e-169
TAIR|locus:2035454 902 MP "MONOPTEROS" [Arabidopsis t 0.467 0.396 0.622 3.3e-145
TAIR|locus:2174013859 ARF2 "auxin response factor 2" 0.532 0.474 0.478 4.2e-115
TAIR|locus:2175098788 ARF4 "auxin response factor 4" 0.483 0.469 0.502 1.6e-111
TAIR|locus:2025991665 ARF1 "auxin response factor 1" 0.466 0.536 0.513 2.1e-109
TAIR|locus:2039124622 ARF11 "auxin response factor 1 0.446 0.549 0.504 1.7e-107
TAIR|locus:2076765602 ARF18 "auxin response factor 1 0.467 0.594 0.5 4e-104
TAIR|locus:2138096638 ARF9 "auxin response factor 9" 0.480 0.576 0.476 6.6e-102
TAIR|locus:2152642 ARF8 "auxin response factor 8" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 2058 (729.5 bits), Expect = 9.2e-277, Sum P(2) = 9.2e-277
 Identities = 388/457 (84%), Positives = 415/457 (90%)

Query:     1 MKLSTSGLCQQGHEGDNKCLNSELWHACAGPLVSLPTVGTRVVYFPQGHSEQVAATTNKE 60
             MKLSTSGL QQGHEG+ KCLNSELWHACAGPLVSLP+ G+RVVYFPQGHSEQVAATTNKE
Sbjct:     1 MKLSTSGLGQQGHEGE-KCLNSELWHACAGPLVSLPSSGSRVVYFPQGHSEQVAATTNKE 59

Query:    61 VDSHIPNYPNLPPQLICQLHNVTMHADVETDEVYAQMTLQPLSPEEQKDTFVPIELGIPS 120
             VD HIPNYP+LPPQLICQLHNVTMHADVETDEVYAQMTLQPL+PEEQK+TFVPIELGIPS
Sbjct:    60 VDGHIPNYPSLPPQLICQLHNVTMHADVETDEVYAQMTLQPLTPEEQKETFVPIELGIPS 119

Query:   121 KQPTNYFCKTLTASDTSTHGGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVEWKFR 180
             KQP+NYFCKTLTASDTSTHGGFSVPRRAAEKVFP LD++LQPPAQELIARDLHDVEWKFR
Sbjct:   120 KQPSNYFCKTLTASDTSTHGGFSVPRRAAEKVFPPLDYTLQPPAQELIARDLHDVEWKFR 179

Query:   181 HIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIRRAIRPPTVMPSSVL 240
             HIFRGQPKRHLLTTGWSVFVSAKRLVAGDSV+FI NEKNQL LGIR A RP T++PSSVL
Sbjct:   180 HIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVIFIRNEKNQLFLGIRHATRPQTIVPSSVL 239

Query:   241 SSDSMHIGLLXXXXXXXXTNSCFTVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRM 300
             SSDSMHIGLL        TNSCFTVFF+PRAS SEFVI L+KY+KAVFHTR+SVGMRFRM
Sbjct:   240 SSDSMHIGLLAAAAHASATNSCFTVFFHPRASQSEFVIQLSKYIKAVFHTRISVGMRFRM 299

Query:   301 LFETEESSVRRYMGTITGISDLDPVRWSNSHWRSVKVGWDESTAGERQPRVSLWEIEPLT 360
             LFETEESSVRRYMGTITGISDLD VRW NSHWRSVKVGWDESTAGERQPRVSLWEIEPLT
Sbjct:   300 LFETEESSVRRYMGTITGISDLDSVRWPNSHWRSVKVGWDESTAGERQPRVSLWEIEPLT 359

Query:   361 TFPMYPSLFPLRLKRPWHPSTSSFNDNRDETASGLNWLRGGTGEQ-GLTTLNFQSLGMFP 419
             TFPMYPSLFPLRLKRPWH  TSS  D R +  SGL WLRGG GEQ GL  LN+ S+G+FP
Sbjct:   360 TFPMYPSLFPLRLKRPWHAGTSSLPDGRGDLGSGLTWLRGGGGEQQGLLPLNYPSVGLFP 419

Query:   420 WMQQRVEPSFLGNDHNQQYQAMLAAGMQS---GDPVR 453
             WMQQR++ S +G D+NQQYQAMLAAG+Q+   GDP+R
Sbjct:   420 WMQQRLDLSQMGTDNNQQYQAMLAAGLQNIGGGDPLR 456
GO:0003677 "DNA binding" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IEA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;TAS
GO:0009725 "response to hormone stimulus" evidence=IEA
GO:0046983 "protein dimerization activity" evidence=IEA
GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS;TAS
GO:0009733 "response to auxin stimulus" evidence=IMP
GO:0009908 "flower development" evidence=IGI
GO:0009855 "determination of bilateral symmetry" evidence=RCA
GO:0009886 "post-embryonic morphogenesis" evidence=RCA
GO:0009887 "organ morphogenesis" evidence=RCA
GO:0009909 "regulation of flower development" evidence=RCA
GO:0010051 "xylem and phloem pattern formation" evidence=RCA
GO:0048439 "flower morphogenesis" evidence=RCA
GO:0048481 "ovule development" evidence=RCA
GO:0048507 "meristem development" evidence=RCA
GO:0048519 "negative regulation of biological process" evidence=RCA
TAIR|locus:2204237 ARF6 "auxin response factor 6" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2202205 ARF19 "auxin response factor 19" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2035454 MP "MONOPTEROS" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2174013 ARF2 "auxin response factor 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2175098 ARF4 "auxin response factor 4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2025991 ARF1 "auxin response factor 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2039124 ARF11 "auxin response factor 11" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2076765 ARF18 "auxin response factor 18" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2138096 ARF9 "auxin response factor 9" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q9FGV1ARFH_ARATHNo assigned EC number0.70100.96080.9075yesno
Q0J951ARFL_ORYSJNo assigned EC number0.63190.94900.8887yesno
Q258Y5ARFL_ORYSINo assigned EC number0.63350.94900.8909N/Ano

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

Your Input:
gw1.IV.3880.1
SubName- Full=Putative uncharacterized protein; (796 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

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 ?
Query766
pfam0650783 pfam06507, Auxin_resp, Auxin response factor 5e-43
pfam0236297 pfam02362, B3, B3 DNA binding domain 4e-26
smart0101996 smart01019, B3, B3 DNA binding domain 2e-24
cd1001798 cd10017, B3_DNA, Plant-specific B3-DNA binding dom 4e-20
pfam02309188 pfam02309, AUX_IAA, AUX/IAA family 6e-13
pfam09606 768 pfam09606, Med15, ARC105 or Med15 subunit of Media 7e-05
pfam09770 804 pfam09770, PAT1, Topoisomerase II-associated prote 4e-04
pfam13779820 pfam13779, DUF4175, Domain of unknown function (DU 4e-04
pfam09770 804 pfam09770, PAT1, Topoisomerase II-associated prote 0.004
>gnl|CDD|191545 pfam06507, Auxin_resp, Auxin response factor Back     alignment and domain information 
 Score =  149 bits (379), Expect = 5e-43
 Identities = 55/84 (65%), Positives = 69/84 (82%), Gaps = 1/84 (1%)

Query: 253 AAHAAATNSCFTVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRMLFETEESSVRRY 312
           AAHAA+T S F VF+NPRAS SEFV+P  KY+KA+ +   SVGMRF+M FETE+SS RR+
Sbjct: 1   AAHAASTGSPFHVFYNPRASTSEFVVPYAKYLKAMNN-PFSVGMRFKMRFETEDSSERRF 59

Query: 313 MGTITGISDLDPVRWSNSHWRSVK 336
            GTI+G+SDLDP+RW NS WRS++
Sbjct: 60  SGTISGVSDLDPIRWPNSKWRSLQ 83

A conserved region of auxin-responsive transcription factors. Length = 83
>gnl|CDD|216995 pfam02362, B3, B3 DNA binding domain Back     alignment and domain information
>gnl|CDD|214977 smart01019, B3, B3 DNA binding domain Back     alignment and domain information
>gnl|CDD|197383 cd10017, B3_DNA, Plant-specific B3-DNA binding domain Back     alignment and domain information
>gnl|CDD|216968 pfam02309, AUX_IAA, AUX/IAA family Back     alignment and domain information
>gnl|CDD|220309 pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal Back     alignment and domain information
>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1 Back     alignment and domain information
>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175) Back     alignment and domain information
>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 766
PF0650783 Auxin_resp: Auxin response factor; InterPro: IPR01 100.0
PF02309215 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The A 99.94
PF02362100 B3: B3 DNA binding domain; InterPro: IPR003340 Two 99.7
KOG06441113 consensus Uncharacterized conserved protein, conta 99.28
PF09217156 EcoRII-N: Restriction endonuclease EcoRII, N-termi 98.49
PF03754114 DUF313: Domain of unknown function (DUF313) ; Inte 97.73
PF0056484 PB1: PB1 domain; InterPro: IPR000270 The Phox and 96.67
smart0066681 PB1 PB1 domain. Phox and Bem1p domain, present in 95.87
cd0640986 PB1_MUG70 The MUG70 protein is a product of the me 95.54
cd0639681 PB1_NBR1 The PB1 domain is an essential part of NB 95.5
cd0640782 PB1_NLP A PB1 domain is present in NIN like protei 95.41
cd0599281 PB1 The PB1 domain is a modular domain mediating s 95.13
cd0639891 PB1_Joka2 The PB1 domain is present in the Nicotia 94.99
cd0640380 PB1_Par6 The PB1 domain is an essential part of Pa 91.22
cd0640483 PB1_aPKC PB1 domain is an essential modular domain 90.81
cd0639782 PB1_UP1 Uncharacterized protein 1. The PB1 domain 89.35
cd0640287 PB1_p62 The PB1 domain is an essential part of p62 88.55
cd0640181 PB1_TFG The PB1 domain found in TFG protein, an on 88.39
>PF06507 Auxin_resp: Auxin response factor; InterPro: IPR010525 This pattern represents a conserved region of auxin-responsive transcription factors Back     alignment and domain information 
Probab=100.00  E-value=1.1e-35  Score=261.77  Aligned_cols=83  Identities=65%  Similarity=1.048  Sum_probs=81.2

Q ss_pred             HHHHHhcCCcEEEEEccCCCCCcceechhHHHHhhhcCCCccccEEEEeeeccccccceeeEEEEEeccCCCCCCCCCCc
Q 004237          253 AAHAAATNSCFTVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWSNSHW  332 (766)
Q Consensus       253 Aa~aaa~~~~F~V~Y~PRas~sEFVVp~~kyvkA~~~~~ws~GmRFrM~fEtEDss~rr~~GTI~gisd~Dp~rWp~S~W  332 (766)
                      |+|||+++++|+|+||||++++|||||++||++|+. ++|++||||||+||+||+++++|+|||+||+++||+|||+|+|
T Consensus         1 A~~aa~~~~~F~V~Y~PRa~~sEFVV~~~k~~~al~-~~~~~GmRfkM~fE~eds~~~~~~GtI~~v~~~dp~~w~~S~W   79 (83)
T PF06507_consen    1 AAHAAATGSPFEVFYYPRASPSEFVVPASKYDKALN-HPWSVGMRFKMRFETEDSSERRWQGTIVGVSDLDPIRWPGSKW   79 (83)
T ss_pred             ChhHhhcCCeEEEEECCCCCCcceEEEHHHHHHHhc-CCCCCCcEEEEEeccCCCccceeeeEEeEeeccCCCCCCCCCc
Confidence            689999999999999999999999999999999997 7999999999999999999999999999999999999999999


Q ss_pred             ccee
Q 004237          333 RSVK  336 (766)
Q Consensus       333 R~L~  336 (766)
                      ||||
T Consensus        80 R~Lq   83 (83)
T PF06507_consen   80 RMLQ   83 (83)
T ss_pred             ccCc
Confidence            9997

The plant hormone auxin (indole-3-acetic acid) can regulate the gene expression of several families, including Aux/IAA, GH3 and SAUR families. Two related families of proteins, Aux/IAA proteins (IPR003311 from INTERPRO) and the auxin response factors (ARF), are key regulators of auxin-modulated gene expression []. There are multiple ARF proteins, some of which activate, while others repress transcription. ARF proteins bind to auxin-responsive cis-acting promoter elements (AuxREs) using an N-terminal DNA-binding domain. It is thought that Aux/IAA proteins activate transcription by modifying ARF activity through the C-terminal protein-protein interaction domains (IPR011525 from INTERPRO) found in both Aux/IAA and ARF proteins. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0009725 response to hormone stimulus, 0005634 nucleus
>PF02309 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The Aux/IAA family of genes are key regulators of auxin-modified gene expression [] Back     alignment and domain information
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species Back     alignment and domain information
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only] Back     alignment and domain information
>PF09217 EcoRII-N: Restriction endonuclease EcoRII, N-terminal; InterPro: IPR023372 There are four classes of restriction endonucleases: types I, II,III and IV Back     alignment and domain information
>PF03754 DUF313: Domain of unknown function (DUF313) ; InterPro: IPR005508 This is a family of proteins from Arabidopsis thaliana (Mouse-ear cress) with uncharacterised function Back     alignment and domain information
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins Back     alignment and domain information
>smart00666 PB1 PB1 domain Back     alignment and domain information
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain Back     alignment and domain information
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62 Back     alignment and domain information
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium) Back     alignment and domain information
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity Back     alignment and domain information
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein Back     alignment and domain information
>cd06403 PB1_Par6 The PB1 domain is an essential part of Par6 protein which in complex with Par3 and aPKC proteins is crucial for establishment of apical-basal polarity of animal cells Back     alignment and domain information
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells Back     alignment and domain information
>cd06397 PB1_UP1 Uncharacterized protein 1 Back     alignment and domain information
>cd06402 PB1_p62 The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover Back     alignment and domain information
>cd06401 PB1_TFG The PB1 domain found in TFG protein, an oncogenic gene product and fusion partner to nerve growth factor tyrosine kinase receptor TrkA and to the tyrosine kinase ALK 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 ?
Query766
1wid_A130 Solution Structure Of The B3 Dna-Binding Domain Of 8e-07
>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1 Length = 130 Back     alignment and structure 
Iteration: 1

 Score = 52.8 bits (125), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 30/87 (34%), Positives = 43/87 (49%)
Query: 127 FCKTLTASDTSTHGGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVEWKFRHIFRGQ 186
           F K +T SD        +P+  AEK FP    ++      L   D++   W+FR+ +   
Sbjct: 14  FEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNS 73
Query: 187 PKRHLLTTGWSVFVSAKRLVAGDSVLF 213
            + ++LT GWS FV  K L AGD V F
Sbjct: 74  SQSYVLTKGWSRFVKEKNLRAGDVVSF 100

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query766
1wid_A130 DNA-binding protein RAV1; DNA-binding domain, stru 3e-42
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-09
>1wid_A DNA-binding protein RAV1; DNA-binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: b.142.1.2 Length = 130 Back     alignment and structure
 Score =  149 bits (376), Expect = 3e-42
 Identities = 37/126 (29%), Positives = 55/126 (43%)

Query: 117 GIPSKQPTNYFCKTLTASDTSTHGGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVE 176
           G   +     F K +T SD        +P+  AEK FP    ++      L   D++   
Sbjct: 4   GSSGRSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKV 63

Query: 177 WKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLGIRRAIRPPTVMP 236
           W+FR+ +    + ++LT GWS FV  K L AGD V F  +      L I    R  + + 
Sbjct: 64  WRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSDLD 123

Query: 237 SSVLSS 242
           +S  SS
Sbjct: 124 ASGPSS 129
>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 ?
Query766
1wid_A130 DNA-binding protein RAV1; DNA-binding domain, stru 99.96
4i1k_A146 B3 domain-containing transcription factor VRN1; B3 99.68
1yel_A104 AT1G16640; CESG, protein structure initiative, str 99.44
1na6_A404 Ecorii, restriction endonuclease ecorii; site-spec 95.88
1vd2_A89 Protein kinase C, IOTA type; PB1 domain, OPCA moti 92.35
2ktr_A117 Sequestosome-1; autophagy, NF-KB signaling, HOMO-o 91.4
2kkc_A102 Sequestosome-1; P62, PB1, autophagy, ubiquitin-pro 91.05
1wmh_B86 Partitioning defective-6 homolog alpha; kinase, PB 88.96
1q1o_A98 Cell division control protein 24; PB1 domain, PCCR 81.98
>1wid_A DNA-binding protein RAV1; DNA-binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: b.142.1.2 Back     alignment and structure
Probab=99.96  E-value=4.7e-30  Score=239.76  Aligned_cols=114  Identities=29%  Similarity=0.462  Sum_probs=105.1

Q ss_pred             CCCCCceeEEEeecccCCCCCCceeechhhHhhhCCCCCCCCCCCceEEEEEecCCCeEEEEEEEeCCCcceeecccccc
Q 004237          119 PSKQPTNYFCKTLTASDTSTHGGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSV  198 (766)
Q Consensus       119 ~~~~~~~~F~K~LT~SDv~~~GrfsVPk~~AE~~FPpLd~~~~~p~q~L~~~D~~G~~W~FR~iyrg~prrhlLTtGWs~  198 (766)
                      ..+....+|+|+||+|||++++||+||+++||.|||.++..+..++++|.++|.+|++|+|||+||+++++|+|++||+.
T Consensus         6 ~~~~~~~~F~K~Lt~SDv~~~~rL~iPk~~a~~~lP~~~~~~~~~~~~l~l~D~~Gk~W~fr~~~~~~~~~~~Lt~GW~~   85 (130)
T 1wid_A            6 SGRSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSR   85 (130)
T ss_dssp             --CCCEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEETTTTEEEEESSHHH
T ss_pred             CCCCCcceEEEEEehHHcCCCCEEEeCHHHHHhhCCccccccCCCcEEEEEEeCCCCEEEEEEEEECCCCceEEcCChHH
Confidence            45667889999999999999999999999999999999987777889999999999999999999999999999999999


Q ss_pred             cccccCCCCCCEEEEEEcc--CCcEEEEEEecCCCC
Q 004237          199 FVSAKRLVAGDSVLFIWNE--KNQLLLGIRRAIRPP  232 (766)
Q Consensus       199 FV~~K~L~aGDsVvF~R~~--~g~L~vGIRRa~r~~  232 (766)
                      ||++|+|++||+|+|+|.+  +++|+||+||+.++.
T Consensus        86 FV~~~~L~~GD~~~F~~~~~~~~~l~I~~rr~~~~~  121 (130)
T 1wid_A           86 FVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSD  121 (130)
T ss_dssp             HHHHTTCCTTCEEEEEECCSSSCCEEEEEECCCSCS
T ss_pred             HHHHcCCCCCCEEEEEEecCCCcEEEEEEEECCCCC
Confidence            9999999999999999986  468999999998764
>4i1k_A B3 domain-containing transcription factor VRN1; B3 domain beta-barrel, DNA binding protein; 1.60A {Arabidopsis thaliana} Back     alignment and structure
>1yel_A AT1G16640; CESG, protein structure initiative, structural genomics, center for eukaryotic structural genomics, unknown function; NMR {Arabidopsis thaliana} SCOP: b.142.1.2 Back     alignment and structure
>1na6_A Ecorii, restriction endonuclease ecorii; site-specific restriction, mutation, replication, hydrolase; 2.10A {Escherichia coli} SCOP: b.142.1.1 c.52.1.22 PDB: 3hqg_A 3hqf_A Back     alignment and structure
>1vd2_A Protein kinase C, IOTA type; PB1 domain, OPCA motif, APKC, ZIP/P62, MEK5, molecular recognition, transferase; NMR {Homo sapiens} SCOP: d.15.2.2 PDB: 1wmh_A Back     alignment and structure
>2ktr_A Sequestosome-1; autophagy, NF-KB signaling, HOMO-oligomer, PB1 dimer, signaling protein, transport protein; NMR {Rattus norvegicus} Back     alignment and structure
>2kkc_A Sequestosome-1; P62, PB1, autophagy, ubiquitin-proteasome system, NF-KB signaling, alternative splicing, apoptosis, cytoplasm, differentiation; NMR {Rattus norvegicus} PDB: 2ktr_B Back     alignment and structure
>1wmh_B Partitioning defective-6 homolog alpha; kinase, PB1 domain, OPCA motif, APKC, cell polarity, transferase/cell cycle complex; 1.50A {Homo sapiens} SCOP: d.15.2.2 Back     alignment and structure
>1q1o_A Cell division control protein 24; PB1 domain, PCCR, PC motif, OPCA motif, yeast, cell polarity, protein-protein interaction; NMR {Saccharomyces cerevisiae} SCOP: d.15.2.2 PDB: 2kfj_A 2kfk_B 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 766
d1wida_117 b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cre 1e-33
d1na6a1175 b.142.1.1 (A:4-178) Restriction endonuclease EcoRI 1e-22
d1yela1102 b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabid 1e-10
>d1wida_ b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 117 Back     information, alignment and structure

class: All beta proteins
fold: DNA-binding pseudobarrel domain
superfamily: DNA-binding pseudobarrel domain
family: B3 DNA binding domain
domain: DNA-binding protein RAV1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score =  122 bits (308), Expect = 1e-33
 Identities = 33/110 (30%), Positives = 50/110 (45%), Gaps = 2/110 (1%)

Query: 121 KQPTNYFCKTLTASDTSTHGGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVEWKFR 180
           +     F K +T SD        +P+  AEK FP    ++      L   D++   W+FR
Sbjct: 1   RSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFR 60

Query: 181 HIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFIW--NEKNQLLLGIRRA 228
           + +    + ++LT GWS FV  K L AGD V F     +  QL +G +  
Sbjct: 61  YSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSR 110
>d1na6a1 b.142.1.1 (A:4-178) Restriction endonuclease EcoRII, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 175 Back     information, alignment and structure
>d1yela1 b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 102 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 ?
Query766
d1wida_117 DNA-binding protein RAV1 {Thale cress (Arabidopsis 99.94
d1na6a1175 Restriction endonuclease EcoRII, N-terminal domain 99.84
d1yela1102 At1g16640 {Thale cress (Arabidopsis thaliana) [Tax 99.36
d2bkfa185 Next to BRCA1 gene 1 protein, NBR1 (KIAA0049) {Hum 95.57
d1ip9a_85 Bud emergence mediator Bemp1 {Baker's yeast (Sacch 89.51
>d1wida_ b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
class: All beta proteins
fold: DNA-binding pseudobarrel domain
superfamily: DNA-binding pseudobarrel domain
family: B3 DNA binding domain
domain: DNA-binding protein RAV1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.94  E-value=3.2e-27  Score=213.06  Aligned_cols=109  Identities=30%  Similarity=0.476  Sum_probs=102.7

Q ss_pred             CceeEEEeecccCCCCCCceeechhhHhhhCCCCCCCCCCCceEEEEEecCCCeEEEEEEEeCCCcceeecccccccccc
Q 004237          123 PTNYFCKTLTASDTSTHGGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSA  202 (766)
Q Consensus       123 ~~~~F~K~LT~SDv~~~GrfsVPk~~AE~~FPpLd~~~~~p~q~L~~~D~~G~~W~FR~iyrg~prrhlLTtGWs~FV~~  202 (766)
                      ...+|.|+||+|||+++|||+||+++|+.|||+++.....+++.|.+.|.+|++|+|+|+||++.++|+|++||..||++
T Consensus         3 ~~~iF~K~Lt~sDv~~~~rL~iP~~~~~~~lp~~~~~~~~~~~~~~~~d~~g~~W~~~~~~~~~~~~~~l~~GW~~Fv~~   82 (117)
T d1wida_           3 AEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKE   82 (117)
T ss_dssp             CEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEETTTTEEEEESSHHHHHHH
T ss_pred             CceEEEEEecchhcCCCCEEEECHHHHHHhCCccccccCCCcEEEEEEeCCCCEEEEEEEEECCCCceEEecCHHHHHHH
Confidence            36799999999999999999999999999999999998889999999999999999999999988999999999999999


Q ss_pred             cCCCCCCEEEEEEc--cCCcEEEEEEecCCC
Q 004237          203 KRLVAGDSVLFIWN--EKNQLLLGIRRAIRP  231 (766)
Q Consensus       203 K~L~aGDsVvF~R~--~~g~L~vGIRRa~r~  231 (766)
                      ++|++||.|+|+|+  ++++++|++||+...
T Consensus        83 ~~Lk~GD~~~F~~~~~~~~~~~i~~r~~~~~  113 (117)
T d1wida_          83 KNLRAGDVVSFSRSNGQDQQLYIGWKSRSGS  113 (117)
T ss_dssp             TTCCTTCEEEEEECCSSSCCEEEEEECCCSC
T ss_pred             cCCCCCCEEEEEEEeCCCCEEEEEEEECCCC
Confidence            99999999999997  477999999998654
>d1na6a1 b.142.1.1 (A:4-178) Restriction endonuclease EcoRII, N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1yela1 b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d2bkfa1 d.15.2.2 (A:1-85) Next to BRCA1 gene 1 protein, NBR1 (KIAA0049) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ip9a_ d.15.2.2 (A:) Bud emergence mediator Bemp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure