Citrus Sinensis ID: 004106

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---
MVGLIDLNTTEDDENPSSGSLSPSSSSASALSASGFALAPAPASASASASGVSLELWHACAGPLISLPKRGSVVVYFPQGHLEHVSDFSAAASAAYDLPPHPFCRVADVKLHAEAASDEVYAQVSLVPDELIEQKVREGKIEDGDEDSVEVVAKSSTPHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFLRGEDGELRLGIRRAPHVKSGATFPSFCSQQSSPNSVTEVVDAIARKRAFSISYNPRASASEFIIPVNKFLKSLDHSFAVGMRFKMRFETDDAAERRFNIFELVALNSKHYIESYSSLNDRYTGVIMGVGDVDPVRWPGSKWRCLLVRWDDVESNRHTRVSPWEIEPSGSVCGSNNLITSGLKRTRIGLPSGKPEFPVPDGIGVTDFGESLRFQKVLQGQEILGFNTLYDGGDCQNLHPSEVRRGILGSNGSGIAAIGDGSRNLQVKSDISYKGIGIGFGESFRFHKVLQGQEIFPKSPYGRAPTNNEARGIGSLGISDGVLVSGSRNRWSAVVPGYNTHTSPSAPPVQVSSPSSVLMFQLASNPISNYNPPYSLNDQEKEQRVNCQSFFHNSEIYGGKHASSSFLDHSFRGGDQEVMDSIGQSNEHISPPLVGQPTVRGSQDLVSSCKGSCRLFGFSLTEERHVANIEDNAAPVASPLNPRSSFLSHVGQQFHPKPPVMSKATGSNCTNVSNHCAVRDMLFDIAL
cccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccEEEEEccccccccccccHHHccccccccccccEEEccccHHHcccHHHHcEEcccccHHHHHHHHccccccccccHHHHHHcccccEEEEEEEEccccccccccEEccccHHHccccccccccccccEEEEEcccccEEEEEEEEEcccccEEEccccHHHHHccccccccEEEEEEcccccEEEEEEEccccccccccccccccccccccHHHHHHHHHHccccEEEEEcccccccccccHHHHHHHcccccccccEEEEEEccccccccHHHHHHHHccccccEEcccccccccEEcEEEEEccccccccccccccEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccc
cEEEEEccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHcccccEccccccEEEEcccccHHHHHcccccccccccccccEEEEEEEEEEEccccccEEEEEEEEcccccHHHHccccccccccccccccccccccccccEEEEccccccccccccHcHHHHHHHcccccccccccHHHHHHHHHccccEEEEEEEccccccEEEccccEEEEcccEEEcccEEEEEEcccccEEEEEEEccccccccccccEcccccHHHHHHHHHHHHHcccEEEEEEccccccccEEEEHHHHHHHHccccEEEEEEEEEEcccccccccccEEEEEEccccccEEEEEEEccccEEEEEEccccccccccccccEEEEEEcccccccccccccccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccEEEEEEEEcc
mvglidlntteddenpssgslspssssasalsasgfalapapasasasasGVSLELWHACagplislpkrgsvvvyfpqghlehvsdfsaaasaaydlpphpfcrvadvklhaeaasDEVYAQVSLVPDELIEQKVRegkiedgdedsVEVVAksstphmfcktltasdtsthggfsvprraaedcfppldysqqrpsqeLVAKDLHGLEWRfrhiyrgqprrhlltTGWSAFvnkkklvsgdavlflrgedgelrlgirraphvksgatfpsfcsqqsspnsvTEVVDAIARKRAFSisynprasasefiipVNKFLKSLDHSFAVGMRFKMRFETDDAAERRFNIFELVALNSKHYIESYSSlndrytgvimgvgdvdpvrwpgskwrcllvrwddvesnrhtrvspweiepsgsvcgsnnlitsglkrtriglpsgkpefpvpdgigvtdfgesLRFQKVLQGqeilgfntlydggdcqnlhpsevrrgilgsngsgiaaigdgsrnlqvksdisykgigigfgeSFRFHkvlqgqeifpkspygraptnneargigslgisdgvlvsgsrnrwsavvpgynthtspsappvqvsspssVLMFQLasnpisnynppyslndqekeqrvncqsffhnseiyggkhasssfldhsfrggdqEVMDSigqsnehispplvgqptvrgsqdlvssckgscrlfgfslteerhvaniednaapvasplnprssflshvgqqfhpkppvmskatgsnctnvsnhcavRDMLFDIAL
mvglidlntteddenpssgslspSSSSASALSASGFALAPAPASASASASGVSLELWHACAGPLISLPKRGSVVVYFPQGHLEHVSDFSAAASAAYDLPPHPFCRVADVKLHAEAASDEVYAQVSLVPDELIEQKVregkiedgdedsVEVVAKSSTPHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFLRGEDGELRLGIRRAPHVKSGATfpsfcsqqsspnSVTEVVDAIARKRAFSisynprasaseFIIPVNKFLKSLDHSFAVGMRFKMRFETDDAAERRFNIFELVALNSKHYIESYSSLNDRYTGVIMGVGDVDPVRWPGSKWRCLLVRWDDVESNRHtrvspweiepsgsvcgsnnLITSGLKRTRIGLPSGKPEFPVPDGIGVTDFGESLRFQKVLQGQEILGFNTLYDGGDCQNLHPSEVRRGILGSNGSGIAAIGDGSRNLQVKSDISYKGIGIGFGESFRFHKVLQGQEIFPKSPYGRAPTNNEARGIGSLGISDGVLVSGSRNRWSAVVPGYNTHTSPSAPPVQVSSPSSVLMFQLASNPISNYNPPYSLNDQEKEQRVNCQSFFHNSEIYGGKHASSSFLDHSFRGGDQEVMDSIGQSNEHISPPLVGQPTVRGSQDLVSSCKGSCRLFGFSLTEERHVANIEDNAAPVASPLNPRSSFLSHVGQQFHPKPPVMSKATGSNCTNVSNHCAVRDMLFDIAL
MVGLIDLNTTEDDENPssgslspssssasalsasgfalapapasasasasgVSLELWHACAGPLISLPKRGSVVVYFPQGHLEHVSDFsaaasaaYDLPPHPFCRVADVKLHAEAASDEVYAQVSLVPDELIEQKVREGKIEDGDEDSVEVVAKSSTPHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFLRGEDGELRLGIRRAPHVKSGATFPSFCSQQSSPNSVTEVVDAIARKRAFSISYNPRASASEFIIPVNKFLKSLDHSFAVGMRFKMRFETDDAAERRFNIFELVALNSKHYIESYSSLNDRYTGVIMGVGDVDPVRWPGSKWRCLLVRWDDVESNRHTRVSPWEIEPSGSVCGSNNLITSGLKRTRIGLPSGKPEFPVPDGIGVTDFGESLRFQKVLQGQEILGFNTLYDGGDCQNLHPSEVRRGILGSNGSGIAAIGDGSRNLQVKSDISYKGIGIGFGESFRFHKVLQGQEIFPKSPYGRAPTNNEARGIGSLGISDGVLVSGSRNRWSAVVPGYNTHTspsappvqvsspssvLMFQLASNPISNYNPPYSLNDQEKEQRVNCQSFFHNSEIYGGKHASSSFLDHSFRGGDQEVMDSIGQSNEHISPPLVGQPTVRGSQDLVSSCKGSCRLFGFSLTEERHVANIEDNAAPVASPLNPRSSFLSHVGQQFHPKPPVMSKATGSNCTNVSNHCAVRDMLFDIAL
***************************************************VSLELWHACAGPLISLPKRGSVVVYFPQGHLEHVSDFSAAASAAYDLPPHPFCRVADVKLHAEAASDEVYAQVSLVPDELI****************************FCK*************************************LVAKDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFLRGEDGELRLGIRRAPHVK******************TEVVDAIARKRAFSISYNPRASASEFIIPVNKFLKSLDHSFAVGMRFKMRFETDDAAERRFNIFELVALNSKHYIESYSSLNDRYTGVIMGVGDVDPVRWPGSKWRCLLVRWDDVESNRHTRVSPWEIEPSGSVCGSNNLITSGLKRTRIGL*****EFPVPDGIGVTDFGESLRFQKVLQGQEILGFNTLYDGGDCQNLHPSEVRRGILGSNGSGIAAIGDGSRNLQVKSDISYKGIGIGFGESFRFHKVLQGQEIFP**************GIGSLGISDGVLVSGSRNRWSAVVPGY************************************************CQSFFHNSEIYG**********************************************LVSSCKGSCRLFGFSLTEERHVA******************************************TNVSNHCAVRDMLFD***
**GLID*N**********************************************ELWHACAGPLISLPKRGSVVVYFPQGHLEH**********AYDLPPHPFCRVADVKLHAEAASDEVYAQVSLVPD*****************************HMFCKTLTASDTSTHGGFSVPRRAAEDCF************ELVAKDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFLRGEDGELRLGIRRAPHVKSGATFPSFCSQQSSPNSVTEVVDAIARKRAFSISYNPRASASEFIIPVNKFLKSLDHSFAVGMRFKMRFETDDAAERRFNIFELVALNSKHYIESYSSLNDRYTGVIMGVGDVDPVRWPGSKWRCLLVRWDDVESNRHTRVSPWEIEPSG********************************************************************************************************************************************************************************************************************************************************************************************LFGFSL***************************************************VSNHCAVRDMLFDIAL
MVGLIDLNTT******************************************SLELWHACAGPLISLPKRGSVVVYFPQGHLEHVSDFSAAASAAYDLPPHPFCRVADVKLHAEAASDEVYAQVSLVPDELIEQKVREGKIEDGDEDSVEVVAKSSTPHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFLRGEDGELRLGIRRAPHVKSGATFPS************EVVDAIARKRAFSISYNPRASASEFIIPVNKFLKSLDHSFAVGMRFKMRFETDDAAERRFNIFELVALNSKHYIESYSSLNDRYTGVIMGVGDVDPVRWPGSKWRCLLVRWDDVESNRHTRVSPWEIEPSGSVCGSNNLITSGLKRTRIGLPSGKPEFPVPDGIGVTDFGESLRFQKVLQGQEILGFNTLYDGGDCQNLHPSEVRRGILGSNGSGIAAIGDGSRNLQVKSDISYKGIGIGFGESFRFHKVLQGQEIFPKSPYGRAPTNNEARGIGSLGISDGVLVSGSRNRWSAVVPGYNTH*************SSVLMFQLASNPISNYNPPYSLNDQEKEQRVNCQSFFHNSEIYGGKHASSSFLDHSFRGGDQEVMDSIGQSNEHISPPLVGQPTVRGSQDLVSSCKGSCRLFGFSLTEERHVANIEDNAAPVASPLNPRSSFLSHVGQQFHPKPPVMSKATGSNCTNVSNHCAVRDMLFDIAL
MVG*I***T***************************************ASGVSLELWHACAGPLISLPKRGSVVVYFPQGHLEHVSDFSAAASAAYDLPPHPFCRVADVKLHAEAASDEVYAQVSLVPDEL*************************TPHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFLRGEDGELRLGIRRAPHVKSGATFPSFCSQQSSPNSVTEVVDAIARKRAFSISYNPRASASEFIIPVNKFLKSLDHSFAVGMRFKMRFETDDAAERRFNIFELVALNSKHYIESYSSLNDRYTGVIMGVGDVDPVRWPGSKWRCLLVRWDDVESNRHTRVSPWEIEPSGSVCGSNNLITSG****************************************************************************************************************************************************W*************************************************************************************************************************C******L***********************************************NCTNVSNHCAVRDMLFDIAL
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MVGLIDLNTTEDDENPSSGSLSPSSSSASALSASGFALAPAPASASASASGVSLELWHACAGPLISLPKRGSVVVYFPQGHLEHVSDFSAAASAAYDLPPHPFCRVADVKLHAEAASDEVYAQVSLVPDELIEQKVREGKIEDGDEDSVEVVAKSSTPHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFLRGEDGELRLGIRRAPHVKSGATFPSFCSQQSSPNSVTEVVDAIARKRAFSISYNPRASASEFIIPVNKFLKSLDHSFAVGMRFKMRFETDDAAERRFNIFELVALNSKHYIESYSSLNDRYTGVIMGVGDVDPVRWPGSKWRCLLVRWDDVESNRHTRVSPWEIEPSGSVCGSNNLITSGLKRTRIGLPSGKPEFPVPDGIGVTDFGESLRFQKVLQGQEILGFNTLYDGGDCQNLHPSEVRRGILGSNGSGIAAIGDGSRNLQVKSDISYKGIGIGFGESFRFHKVLQGQEIFPKSPYGRAPTNNEARGIGSLGISDGVLVSGSRNRWSAVVPGYNTHTSPSAPPVQVSSPSSVLMFQLASNPISNYNPPYSLNDQEKEQRVNCQSFFHNSEIYGGKHASSSFLDHSFRGGDQEVMDSIGQSNEHISPPLVGQPTVRGSQDLVSSCKGSCRLFGFSLTEERHVANIEDNAAPVASPLNPRSSFLSHVGQQFHPKPPVMSKATGSNCTNVSNHCAVRDMLFDIAL
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 ?
Query773 2.2.26 [Sep-21-2011]
O23661608 Auxin response factor 3 O yes no 0.622 0.791 0.587 1e-171
Q0JKI9718 Auxin response factor 2 O yes no 0.893 0.962 0.451 1e-154
Q8S985712 Auxin response factor 15 no no 0.800 0.869 0.494 1e-150
Q5JMM1731 Auxin response factor 3 O no no 0.769 0.813 0.424 1e-129
Q0DGS1687 Auxin response factor 14 no no 0.764 0.860 0.421 1e-121
Q9ZTX9788 Auxin response factor 4 O no no 0.588 0.577 0.49 1e-118
Q5JK20808 Auxin response factor 4 O no no 0.503 0.481 0.466 1e-100
Q94JM3 859 Auxin response factor 2 O no no 0.499 0.449 0.442 1e-98
A2ZET6 853 Auxin response factor 23 N/A no 0.501 0.454 0.445 1e-95
Q2R3F5 853 Auxin response factor 23 no no 0.501 0.454 0.445 2e-95
>sp|O23661|ARFC_ARATH Auxin response factor 3 OS=Arabidopsis thaliana GN=ARF3 PE=1 SV=2 Back     alignment and function desciption
 Score =  604 bits (1557), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 322/548 (58%), Positives = 385/548 (70%), Gaps = 67/548 (12%)

Query: 1   MVGLIDLNTTEDDENPSSGSLSPSSSSASALSASGFALAPAPASASASASGVSLELWHAC 60
           M GLIDLN  E +E+ +  + +PSS+S S    S  + + +  S++++  GV LELWHAC
Sbjct: 1   MGGLIDLNVMETEEDETQ-TQTPSSASGSVSPTSSSSASVSVVSSNSAGGGVCLELWHAC 59

Query: 61  AGPLISLPKRGSVVVYFPQGHLEHVSDFSAAASAAYDLPPHPFCRVADVKLHAEAASDEV 120
           AGPLISLPKRGS+V+YFPQGHLE   DFSAA    Y LPPH FCR+ DVKLHAE  +DEV
Sbjct: 60  AGPLISLPKRGSLVLYFPQGHLEQAPDFSAAI---YGLPPHVFCRILDVKLHAETTTDEV 116

Query: 121 YAQVSLVPD-ELIEQKVREGKIE-DGDEDSVEVVAKSSTPHMFCKTLTASDTSTHGGFSV 178
           YAQVSL+P+ E IE+KVREG I+ DG E+  EV+ +S+TPHMFCKTLTASDTSTHGGFSV
Sbjct: 117 YAQVSLLPESEDIERKVREGIIDVDGGEEDYEVLKRSNTPHMFCKTLTASDTSTHGGFSV 176

Query: 179 PRRAAEDCFPPLDYSQQRPSQELVAKDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKKK 238
           PRRAAEDCFPPLDYSQ RPSQEL+A+DLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKKK
Sbjct: 177 PRRAAEDCFPPLDYSQPRPSQELLARDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKKK 236

Query: 239 LVSGDAVLFLRGEDGELRLGIRRAPHVKSGATFPSFCSQQSSPNSVTEVVDAIARKRAFS 298
           LVSGDAVLFLRG+DG+LRLG+RRA  ++  A   +  +Q  + N+ +EV  AI+    FS
Sbjct: 237 LVSGDAVLFLRGDDGKLRLGVRRASQIEGTAALSAQYNQNMNHNNFSEVAHAISTHSVFS 296

Query: 299 ISYNPRASASEFIIPVNKFLKSLDHSFAVGMRFKMRFETDDAAERRFNIFELVALNSKHY 358
           ISYNP+AS S FIIP  KFLK +D+ F +GMRFK R E++DA+ERR              
Sbjct: 297 ISYNPKASWSNFIIPAPKFLKVVDYPFCIGMRFKARVESEDASERR-------------- 342

Query: 359 IESYSSLNDRYTGVIMGVGDVDPVRWPGSKWRCLLVRWDDVESNRHT-RVSPWEIEPSGS 417
                       G+I G+ D+DP+RWPGSKWRCLLVRWDD+ +N H  RVSPWEIEPSGS
Sbjct: 343 ----------SPGIISGISDLDPIRWPGSKWRCLLVRWDDIVANGHQQRVSPWEIEPSGS 392

Query: 418 VCGSNNLITSGLKRTRIGLPSGKPEFPVPDGIGVTDFGESLRFQKVLQGQEIL-GF-NTL 475
           +  S + +T+G KR+RIG  SGKP+ PV +GI  TDF ESLRFQ+VLQGQEI  GF NT 
Sbjct: 393 ISNSGSFVTTGPKRSRIGFSSGKPDIPVSEGIRATDFEESLRFQRVLQGQEIFPGFINTC 452

Query: 476 YDGGDCQNLHPSEVRRGILGSNGSGIAAIGDGSRNLQVKSDISYKGIGIGFGESFRFHKV 535
            DGG       +  RRG                           +  G  FG+S+ FHKV
Sbjct: 453 SDGG-------AGARRG---------------------------RFKGTEFGDSYGFHKV 478

Query: 536 LQGQEIFP 543
           LQGQE  P
Sbjct: 479 LQGQETVP 486
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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Involved in the establishment or elaboration of tissue patterning during gynoecial development.
Arabidopsis thaliana (taxid: 3702)
>sp|Q0JKI9|ARFB_ORYSJ Auxin response factor 2 OS=Oryza sativa subsp. japonica GN=ARF2 PE=2 SV=1 Back     alignment and function description
>sp|Q8S985|ARFO_ORYSJ Auxin response factor 15 OS=Oryza sativa subsp. japonica GN=ARF15 PE=2 SV=1 Back     alignment and function description
>sp|Q5JMM1|ARFC_ORYSJ Auxin response factor 3 OS=Oryza sativa subsp. japonica GN=ARF3 PE=2 SV=1 Back     alignment and function description
>sp|Q0DGS1|ARFN_ORYSJ Auxin response factor 14 OS=Oryza sativa subsp. japonica GN=ARF14 PE=2 SV=2 Back     alignment and function description
>sp|Q9ZTX9|ARFD_ARATH Auxin response factor 4 OS=Arabidopsis thaliana GN=ARF4 PE=1 SV=1 Back     alignment and function description
>sp|Q5JK20|ARFD_ORYSJ Auxin response factor 4 OS=Oryza sativa subsp. japonica GN=ARF4 PE=2 SV=1 Back     alignment and function description
>sp|Q94JM3|ARFB_ARATH Auxin response factor 2 OS=Arabidopsis thaliana GN=ARF2 PE=1 SV=2 Back     alignment and function description
>sp|A2ZET6|ARFW_ORYSI Auxin response factor 23 OS=Oryza sativa subsp. indica GN=ARF23 PE=2 SV=1 Back     alignment and function description
>sp|Q2R3F5|ARFW_ORYSJ Auxin response factor 23 OS=Oryza sativa subsp. japonica GN=ARF23 PE=1 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 ?
Query773
255562988730 Auxin response factor, putative [Ricinus 0.928 0.983 0.648 0.0
359483904740 PREDICTED: auxin response factor 3-like 0.948 0.990 0.653 0.0
297740441701 unnamed protein product [Vitis vinifera] 0.904 0.997 0.637 0.0
147770011831 hypothetical protein VITISV_009739 [Viti 0.901 0.838 0.610 0.0
224116336714 predicted protein [Populus trichocarpa] 0.906 0.981 0.619 0.0
356549269736 PREDICTED: auxin response factor 3-like 0.930 0.976 0.591 0.0
224077042709 predicted protein [Populus trichocarpa] 0.882 0.961 0.599 0.0
302398565712 ARF domain class transcription factor [M 0.892 0.969 0.601 0.0
356521420709 PREDICTED: auxin response factor 3-like 0.895 0.976 0.582 0.0
356548656714 PREDICTED: auxin response factor 3-like 0.902 0.977 0.585 0.0
>gi|255562988|ref|XP_002522498.1| Auxin response factor, putative [Ricinus communis] gi|223538189|gb|EEF39798.1| Auxin response factor, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  947 bits (2448), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 499/769 (64%), Positives = 581/769 (75%), Gaps = 51/769 (6%)

Query: 1   MVGLIDLNTTEDDENPSSGSLSPSSSSASALSASGFA---LAPAPASASASASGVSLELW 57
           MVG+IDLNTTE+DE  +  S S SS S+S+ +++  +   L+ AP S S     V LELW
Sbjct: 1   MVGIIDLNTTEEDEKTTPSSGSFSSPSSSSSTSAALSATNLSSAPVSGS-----VCLELW 55

Query: 58  HACAGPLISLPKRGSVVVYFPQGHLEHVSDFSAAASAAYDLPPHPFCRVADVKLHAEAAS 117
           HACAGPLISLPK+GSVVVYFPQGHLE + D   A    YDLP + FCRV DVKLHAE A+
Sbjct: 56  HACAGPLISLPKKGSVVVYFPQGHLEQLPDLPLAV---YDLPSYIFCRVVDVKLHAETAN 112

Query: 118 DEVYAQVSLVPD-ELIEQKVREGKIE-DGDEDSVEVVAKSSTPHMFCKTLTASDTSTHGG 175
           DEVYAQVSLVPD E IEQK+++GK+E   +E+ VE V KS+T HMFCKTLTASDTSTHGG
Sbjct: 113 DEVYAQVSLVPDSEQIEQKLKQGKLEGHCEEEDVEAVVKSTTTHMFCKTLTASDTSTHGG 172

Query: 176 FSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVN 235
           FSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHG EW+FRHIYRGQPRRHLLTTGWSAFVN
Sbjct: 173 FSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHGFEWKFRHIYRGQPRRHLLTTGWSAFVN 232

Query: 236 KKKLVSGDAVLFLRGEDGELRLGIRRAPHVKSGATFPSFCSQQSSPNSVTEVVDAIARKR 295
           KKKLVSGDAVLFLRG+DGELRLGIRRA  VK GA+FP+ CSQQ + +++T+VV A++ + 
Sbjct: 233 KKKLVSGDAVLFLRGDDGELRLGIRRAAQVKCGASFPALCSQQLNQSTLTDVVHAMSMRS 292

Query: 296 AFSISYNPRASASEFIIPVNKFLKSLDHSFAVGMRFKMRFETDDAAERRFNIFELVALNS 355
            F+I YNPRAS+SEFIIP++KFLKSLD+SF+VGMRFKMRFET+DAAER            
Sbjct: 293 LFNICYNPRASSSEFIIPLHKFLKSLDYSFSVGMRFKMRFETEDAAER------------ 340

Query: 356 KHYIESYSSLNDRYTGVIMGVGDVDPVRWPGSKWRCLLVRWDDVESNRHTRVSPWEIEPS 415
                       RY G+I G+ D+DP RWPGSKWRCL+VRWDD+E+NRH+RVSPWEIEPS
Sbjct: 341 ------------RYMGLITGISDLDPARWPGSKWRCLVVRWDDMETNRHSRVSPWEIEPS 388

Query: 416 GSVCGSNNLITSGLKRTRIGLPSGKPEFPVPDGIGVTDFGESLRFQKVLQGQEILGFNTL 475
           GSV   N+ +T GLKR+R G PS KPEFPVPDGIG +DFGE  RFQKVLQGQEIL FNTL
Sbjct: 389 GSVSSCNSFMTPGLKRSRSGFPSSKPEFPVPDGIGASDFGEPSRFQKVLQGQEILNFNTL 448

Query: 476 YDGGDCQNLHPSEVRRGILGSNGSGIAAIGDGSRNLQVKSDISYKGIGIGFGESFRFHKV 535
           YDG D QN HPS++RR   GS  S IA   +G+R+  V SD+SYK   IGF ES RFHKV
Sbjct: 449 YDGVD-QNRHPSDIRRCFPGSRSSMIATTRNGARDPVVNSDVSYK--SIGFSESLRFHKV 505

Query: 536 LQGQEIFPKSPYGRAP-TNNEARGIGSLGISDGVLVSGSRNRWSAVVPGYNTHTSPSAPP 594
           LQGQEI P SP+GRAP + NEA   G  GISDGV ++ SRN WS+++ GYNT      PP
Sbjct: 506 LQGQEIIPSSPFGRAPASTNEACENGCFGISDGVQMTSSRNGWSSMMQGYNTRIR---PP 562

Query: 595 VQVSSPSSVLMFQLASNPISNYNPPYSLNDQEKEQRVNCQSFFHNSEIYGGKHASSSFLD 654
            QVSSP SVLMFQ ASN +SN +P Y  ND E EQ VN QS+FHN E  G K  SSS  +
Sbjct: 563 AQVSSPCSVLMFQQASNQVSNPSPRYGFNDLE-EQGVNTQSWFHNPETCGEKRMSSSRSE 621

Query: 655 HSFRGGDQEVMDSIGQSNEH----ISPPLVGQPTVRGSQDLVSSCKGSCRLFGFSLTEER 710
           H FR  +Q  MDS   S+EH    +  PLV QP  +G QDLVSSCK SCRLFGF LTE+R
Sbjct: 622 HIFRRNNQWGMDSFSLSHEHSQHGLLQPLVAQPPCKGGQDLVSSCKSSCRLFGFQLTEDR 681

Query: 711 HVANIEDNAAPVASPLNPRSSFLSHVGQQFHPKPPVMSKATGSNCTNVS 759
           HVAN +D++ P+AS LN   SF+ H G+QFH KPP ++ A GS+CT VS
Sbjct: 682 HVANKDDSSIPMAS-LNA-GSFMPHAGEQFHLKPPAITNAVGSSCTKVS 728

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359483904|ref|XP_002273401.2| PREDICTED: auxin response factor 3-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|297740441|emb|CBI30623.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|147770011|emb|CAN65414.1| hypothetical protein VITISV_009739 [Vitis vinifera] Back     alignment and taxonomy information
>gi|224116336|ref|XP_002331957.1| predicted protein [Populus trichocarpa] gi|222874734|gb|EEF11865.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356549269|ref|XP_003543018.1| PREDICTED: auxin response factor 3-like [Glycine max] Back     alignment and taxonomy information
>gi|224077042|ref|XP_002305105.1| predicted protein [Populus trichocarpa] gi|222848069|gb|EEE85616.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|302398565|gb|ADL36577.1| ARF domain class transcription factor [Malus x domestica] Back     alignment and taxonomy information
>gi|356521420|ref|XP_003529354.1| PREDICTED: auxin response factor 3-like [Glycine max] Back     alignment and taxonomy information
>gi|356548656|ref|XP_003542716.1| PREDICTED: auxin response factor 3-like [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 ?
Query773
TAIR|locus:2057609608 ETT "ETTIN" [Arabidopsis thali 0.439 0.559 0.632 5.5e-166
TAIR|locus:2175098788 ARF4 "auxin response factor 4" 0.373 0.366 0.587 3.5e-115
TAIR|locus:2174013859 ARF2 "auxin response factor 2" 0.359 0.323 0.514 4.3e-97
TAIR|locus:2025991665 ARF1 "auxin response factor 1" 0.364 0.424 0.513 3.3e-91
TAIR|locus:2204237 935 ARF6 "auxin response factor 6" 0.367 0.303 0.518 7.7e-90
TAIR|locus:2152642811 ARF8 "auxin response factor 8" 0.367 0.350 0.494 5.3e-89
TAIR|locus:2202205 1086 ARF19 "auxin response factor 1 0.371 0.264 0.5 2.6e-85
TAIR|locus:2035454 902 MP "MONOPTEROS" [Arabidopsis t 0.369 0.317 0.491 4e-85
TAIR|locus:2039124622 ARF11 "auxin response factor 1 0.360 0.448 0.489 7.4e-84
TAIR|locus:2076765602 ARF18 "auxin response factor 1 0.360 0.463 0.486 1.7e-82
TAIR|locus:2057609 ETT "ETTIN" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1115 (397.6 bits), Expect = 5.5e-166, Sum P(4) = 5.5e-166
 Identities = 219/346 (63%), Positives = 253/346 (73%)

Query:     1 MVGLIDLNTTEDDENPXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXVSLELWHAC 60
             M GLIDLN  E +E+                                    V LELWHAC
Sbjct:     1 MGGLIDLNVMETEEDETQTQTPSSASGSVSPTSSSSASVSVVSSNSAGGG-VCLELWHAC 59

Query:    61 AGPLISLPKRGSVVVYFPQGHLEHVSDFXXXXXXXYDLPPHPFCRVADVKLHAEAASDEV 120
             AGPLISLPKRGS+V+YFPQGHLE   DF       Y LPPH FCR+ DVKLHAE  +DEV
Sbjct:    60 AGPLISLPKRGSLVLYFPQGHLEQAPDFSAAI---YGLPPHVFCRILDVKLHAETTTDEV 116

Query:   121 YAQVSLVPD-ELIEQKVREGKIE-DGDEDSVEVVAKSSTPHMFCKTLTASDTSTHGGFSV 178
             YAQVSL+P+ E IE+KVREG I+ DG E+  EV+ +S+TPHMFCKTLTASDTSTHGGFSV
Sbjct:   117 YAQVSLLPESEDIERKVREGIIDVDGGEEDYEVLKRSNTPHMFCKTLTASDTSTHGGFSV 176

Query:   179 PRRAAEDCFPPLDYSQQRPSQELVAKDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKKK 238
             PRRAAEDCFPPLDYSQ RPSQEL+A+DLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKKK
Sbjct:   177 PRRAAEDCFPPLDYSQPRPSQELLARDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKKK 236

Query:   239 LVSGDAVLFLRGEDGELRLGIRRAPHVKSGATFPSFCSQQSSPNSVTEVVDAIARKRAFS 298
             LVSGDAVLFLRG+DG+LRLG+RRA  ++  A   +  +Q  + N+ +EV  AI+    FS
Sbjct:   237 LVSGDAVLFLRGDDGKLRLGVRRASQIEGTAALSAQYNQNMNHNNFSEVAHAISTHSVFS 296

Query:   299 ISYNPRASASEFIIPVNKFLKSLDHSFAVGMRFKMRFETDDAAERR 344
             ISYNP+AS S FIIP  KFLK +D+ F +GMRFK R E++DA+ERR
Sbjct:   297 ISYNPKASWSNFIIPAPKFLKVVDYPFCIGMRFKARVESEDASERR 342
GO:0003677 "DNA binding" evidence=IEA;ISS
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:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS;TAS
GO:0009850 "auxin metabolic process" evidence=TAS
GO:0010158 "abaxial cell fate specification" evidence=IGI
GO:0010050 "vegetative phase change" evidence=IGI;RCA;IMP
GO:0007389 "pattern specification process" evidence=RCA
GO:0009616 "virus induced gene silencing" evidence=RCA
GO:0009855 "determination of bilateral symmetry" evidence=RCA
GO:0009887 "organ morphogenesis" evidence=RCA
GO:0010051 "xylem and phloem pattern formation" evidence=RCA
GO:0048438 "floral whorl development" evidence=RCA
GO:0048439 "flower morphogenesis" evidence=RCA
GO:0048519 "negative regulation of biological process" evidence=RCA
GO:0009733 "response to auxin stimulus" evidence=ISS
TAIR|locus:2175098 ARF4 "auxin response factor 4" [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:2025991 ARF1 "auxin response factor 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2204237 ARF6 "auxin response factor 6" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2152642 ARF8 "auxin response factor 8" [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: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

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) ?
Q0JKI9ARFB_ORYSJNo assigned EC number0.45140.89390.9623yesno
O23661ARFC_ARATHNo assigned EC number0.58750.62220.7911yesno

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 ?
Query773
pfam0650783 pfam06507, Auxin_resp, Auxin response factor 7e-37
pfam0236297 pfam02362, B3, B3 DNA binding domain 7e-29
smart0101996 smart01019, B3, B3 DNA binding domain 3e-25
cd1001798 cd10017, B3_DNA, Plant-specific B3-DNA binding dom 1e-21
cd10016142 cd10016, EcoRII_N, N-terminal domain of type IIE r 2e-04
cd10015109 cd10015, BfiI_C_EcoRII_N_B3, DNA binding domains o 2e-04
>gnl|CDD|191545 pfam06507, Auxin_resp, Auxin response factor Back     alignment and domain information 
 Score =  132 bits (334), Expect = 7e-37
 Identities = 47/107 (43%), Positives = 63/107 (58%), Gaps = 24/107 (22%)

Query: 287 VVDAIARKRAFSISYNPRASASEFIIPVNKFLKSLDHSFAVGMRFKMRFETDDAAERRFN 346
              A +    F + YNPRAS SEF++P  K+LK++++ F+VGMRFKMRFET+D++ERRF 
Sbjct: 1   AAHAASTGSPFHVFYNPRASTSEFVVPYAKYLKAMNNPFSVGMRFKMRFETEDSSERRF- 59

Query: 347 IFELVALNSKHYIESYSSLNDRYTGVIMGVGDVDPVRWPGSKWRCLL 393
                                  +G I GV D+DP+RWP SKWR L 
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|197382 cd10016, EcoRII_N, N-terminal domain of type IIE restriction endonuclease EcoRII and similar proteins Back     alignment and domain information
>gnl|CDD|197381 cd10015, BfiI_C_EcoRII_N_B3, DNA binding domains of BfiI, EcoRII and plant B3 proteins Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 773
PF0650783 Auxin_resp: Auxin response factor; InterPro: IPR01 100.0
PF02362100 B3: B3 DNA binding domain; InterPro: IPR003340 Two 99.71
KOG06441113 consensus Uncharacterized conserved protein, conta 99.35
PF09217156 EcoRII-N: Restriction endonuclease EcoRII, N-termi 97.95
PF03754114 DUF313: Domain of unknown function (DUF313) ; Inte 97.66
PF02309215 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The A 94.52
>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=3.6e-34  Score=252.32  Aligned_cols=83  Identities=57%  Similarity=1.081  Sum_probs=81.4

Q ss_pred             HHHHHHhCCeEEEEEecCCCCCceeeehhHHHhhccCCcccCcEEEEEEecchhhhhhhhhhHHHhhcccccccccccCC
Q 004106          287 VVDAIARKRAFSISYNPRASASEFIIPVNKFLKSLDHSFAVGMRFKMRFETDDAAERRFNIFELVALNSKHYIESYSSLN  366 (773)
Q Consensus       287 a~~a~~~~~~F~V~Y~Pra~~seFIV~~~ky~~a~~~~w~~GmRfkM~fe~eds~e~r~~~~e~~~~~~~~~~~~~~~~~  366 (773)
                      |+|||+++++|+|+||||++++|||||++||++||+++|++||||||+||+||++|+|                      
T Consensus         1 A~~aa~~~~~F~V~Y~PRa~~sEFVV~~~k~~~al~~~~~~GmRfkM~fE~eds~~~~----------------------   58 (83)
T PF06507_consen    1 AAHAAATGSPFEVFYYPRASPSEFVVPASKYDKALNHPWSVGMRFKMRFETEDSSERR----------------------   58 (83)
T ss_pred             ChhHhhcCCeEEEEECCCCCCcceEEEHHHHHHHhcCCCCCCcEEEEEeccCCCccce----------------------
Confidence            6899999999999999999999999999999999999999999999999999999998                      


Q ss_pred             CceEEEEEeeecCCCCCCCCCCceeeE
Q 004106          367 DRYTGVIMGVGDVDPVRWPGSKWRCLL  393 (773)
Q Consensus       367 ~w~~GtI~gv~~~dp~~wp~S~WR~L~  393 (773)
                        |+|||+||+++||++||+|+|||||
T Consensus        59 --~~GtI~~v~~~dp~~w~~S~WR~Lq   83 (83)
T PF06507_consen   59 --WQGTIVGVSDLDPIRWPGSKWRMLQ   83 (83)
T ss_pred             --eeeEEeEeeccCCCCCCCCCcccCc
Confidence              7999999999999999999999997

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
>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
>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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query773
1wid_A130 Solution Structure Of The B3 Dna-Binding Domain Of 5e-10
>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1 Length = 130 Back     alignment and structure 
Iteration: 1

 Score = 63.2 bits (152), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 36/103 (34%), Positives = 54/103 (52%), Gaps = 2/103 (1%)
Query: 160 MFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHGLEWRFRHIYRG 219
           +F K +T SD        +P+  AE  FP    +       L  +D++G  WRFR+ Y  
Sbjct: 13  LFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWN 72
Query: 220 QPRRHLLTTGWSAFVNKKKLVSGDAVLFLR--GEDGELRLGIR 260
             + ++LT GWS FV +K L +GD V F R  G+D +L +G +
Sbjct: 73  SSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWK 115

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query773
1wid_A130 DNA-binding protein RAV1; DNA-binding domain, stru 3e-38
>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 =  137 bits (346), Expect = 3e-38
 Identities = 37/118 (31%), Positives = 55/118 (46%), Gaps = 2/118 (1%)

Query: 158 PHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHGLEWRFRHIY 217
             +F K +T SD        +P+  AE  FP    +       L  +D++G  WRFR+ Y
Sbjct: 11  EALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSY 70

Query: 218 RGQPRRHLLTTGWSAFVNKKKLVSGDAVLFLRGEDGELRLGI--RRAPHVKSGATFPS 273
               + ++LT GWS FV +K L +GD V F R    + +L I  +        A+ PS
Sbjct: 71  WNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSDLDASGPS 128

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query773
1wid_A130 DNA-binding protein RAV1; DNA-binding domain, stru 99.96
4i1k_A146 B3 domain-containing transcription factor VRN1; B3 99.72
1yel_A104 AT1G16640; CESG, protein structure initiative, str 99.54
1na6_A404 Ecorii, restriction endonuclease ecorii; site-spec 92.78
>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=1.8e-28  Score=229.31  Aligned_cols=113  Identities=31%  Similarity=0.501  Sum_probs=104.0

Q ss_pred             CCceeEEEecccccCCCCCceeeehhhhhhcCCCCCCCCCCCceEEEEEeCCCCeEEEEEEEeCCCcceEeccchhhhhh
Q 004106          156 STPHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVN  235 (773)
Q Consensus       156 ~~~~~F~K~LT~SDV~~~GrfsVPk~~Ae~~FPpLd~~~~~p~q~L~~kDl~G~~W~FR~~yrg~prrhlLTtGWs~FVr  235 (773)
                      +..++|+|+||+|||+++++|+||+++|+.|||+++..+..+.++|.++|.+|++|+|||+||+++++|+|++||+.||+
T Consensus         9 ~~~~~F~K~Lt~SDv~~~~rL~iPk~~a~~~lP~~~~~~~~~~~~l~l~D~~Gk~W~fr~~~~~~~~~~~Lt~GW~~FV~   88 (130)
T 1wid_A            9 SAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVK   88 (130)
T ss_dssp             CCEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEETTTTEEEEESSHHHHHH
T ss_pred             CCcceEEEEEehHHcCCCCEEEeCHHHHHhhCCccccccCCCcEEEEEEeCCCCEEEEEEEEECCCCceEEcCChHHHHH
Confidence            45679999999999999999999999999999999876667889999999999999999999999999999999999999


Q ss_pred             ccCCCCCCEEEEEecCC--CcEEEEEEEcCCCCCC
Q 004106          236 KKKLVSGDAVLFLRGED--GELRLGIRRAPHVKSG  268 (773)
Q Consensus       236 ~KkL~aGDsVvF~R~en--GeL~VGIRRa~~~~~~  268 (773)
                      +|+|++||+|+|++.++  +.|+|++||+......
T Consensus        89 ~~~L~~GD~~~F~~~~~~~~~l~I~~rr~~~~~~~  123 (130)
T 1wid_A           89 EKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSDLD  123 (130)
T ss_dssp             HTTCCTTCEEEEEECCSSSCCEEEEEECCCSCSSC
T ss_pred             HcCCCCCCEEEEEEecCCCcEEEEEEEECCCCCcc
Confidence            99999999999999864  5799999999876543
>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

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 773
d1wida_117 b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cre 5e-37
d1na6a1175 b.142.1.1 (A:4-178) Restriction endonuclease EcoRI 9e-28
d1yela1102 b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabid 1e-12
>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 =  132 bits (333), Expect = 5e-37
 Identities = 37/110 (33%), Positives = 55/110 (50%), Gaps = 2/110 (1%)

Query: 156 STPHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHGLEWRFRH 215
           S   +F K +T SD        +P+  AE  FP    +       L  +D++G  WRFR+
Sbjct: 2   SAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRY 61

Query: 216 IYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFLR--GEDGELRLGIRRAP 263
            Y    + ++LT GWS FV +K L +GD V F R  G+D +L +G +   
Sbjct: 62  SYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRS 111
>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 ?
Query773
d1wida_117 DNA-binding protein RAV1 {Thale cress (Arabidopsis 99.94
d1na6a1175 Restriction endonuclease EcoRII, N-terminal domain 99.78
d1yela1102 At1g16640 {Thale cress (Arabidopsis thaliana) [Tax 99.44
>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=1e-26  Score=210.04  Aligned_cols=107  Identities=33%  Similarity=0.545  Sum_probs=101.2

Q ss_pred             ceeEEEecccccCCCCCceeeehhhhhhcCCCCCCCCCCCceEEEEEeCCCCeEEEEEEEeCCCcceEeccchhhhhhcc
Q 004106          158 PHMFCKTLTASDTSTHGGFSVPRRAAEDCFPPLDYSQQRPSQELVAKDLHGLEWRFRHIYRGQPRRHLLTTGWSAFVNKK  237 (773)
Q Consensus       158 ~~~F~K~LT~SDV~~~GrfsVPk~~Ae~~FPpLd~~~~~p~q~L~~kDl~G~~W~FR~~yrg~prrhlLTtGWs~FVr~K  237 (773)
                      .++|.|+||+|||++++||+||+++|++|||+++...+.++++|.+.|.+|++|+|+|+||++.++|+|++||..||++|
T Consensus         4 ~~iF~K~Lt~sDv~~~~rL~iP~~~~~~~lp~~~~~~~~~~~~~~~~d~~g~~W~~~~~~~~~~~~~~l~~GW~~Fv~~~   83 (117)
T d1wida_           4 EALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEK   83 (117)
T ss_dssp             EEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEETTTTEEEEESSHHHHHHHT
T ss_pred             ceEEEEEecchhcCCCCEEEECHHHHHHhCCccccccCCCcEEEEEEeCCCCEEEEEEEEECCCCceEEecCHHHHHHHc
Confidence            46999999999999999999999999999999999888889999999999999999999998888999999999999999


Q ss_pred             CCCCCCEEEEEec--CCCcEEEEEEEcCC
Q 004106          238 KLVSGDAVLFLRG--EDGELRLGIRRAPH  264 (773)
Q Consensus       238 kL~aGDsVvF~R~--enGeL~VGIRRa~~  264 (773)
                      +|++||+|+|+|.  ++++++|++||+..
T Consensus        84 ~Lk~GD~~~F~~~~~~~~~~~i~~r~~~~  112 (117)
T d1wida_          84 NLRAGDVVSFSRSNGQDQQLYIGWKSRSG  112 (117)
T ss_dssp             TCCTTCEEEEEECCSSSCCEEEEEECCCS
T ss_pred             CCCCCCEEEEEEEeCCCCEEEEEEEECCC
Confidence            9999999999997  46889999999875
>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