Citrus Sinensis ID: 006471

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---
MEQLEASTNQELNQRIPLFRLPSKILCRVVNIHLMAEQETDEVYAQITLLPEPSQNEPTTPDPCPADSPRPKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGELHVGVRCLARQQSSMPSSVISSQSMHLGVLATASHAVATQTMFVVYYKPRTSQFIISLNKYLEAVNNKFAVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPASITRPDRVSPWEIEPFVASATPNLVQPVLAKNKRPRLSMEVPPLDLPSAASAPWSARLAQSHNLTQLSVTAEDKRIDNHVAWHHKHSDFSSNSNFMSRTQSDGEWLTSPRVKFSQQLFQEAIDDNKNISAWPAHSGHSTPHPSKPNNDTLLEQVETGRKTETGTSCRLFGIELINHATSSAPSEKVPVSSLTTEGHIISTISAAADSDGKSDIAKEFKEKKQEQVQVSPKESQSKQSCLTSNRSRTKVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDDPWHEFCNMVKRIFICSSQDVKKMSPGSKLPMFSIEGEDILLSSDSAEK
cccccccccHHHHccccccccccccEEEEEEEEEEcccccHHHHHHccccccccccccccccccccccccccccEEEEEEcccccccccccEEccccHHHccccccccccccccEEEEEEccccEEEEEEEEEcccccEEEcccccccccccccccccEEEEEEcccccEEEEEEEEEcccccccccccccccccccHHHHHHHHHHccccEEEEEccccccccHHHHHHHHHHHcccccccEEEEEcccccccccccccEEEEEccccccccccccccEEEEEcccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccEEEEEcccEEEEEEEccccccHHHHHHHHHHHHccccccccccccEEEEEcccccEEEEccccHHHHHHcccEEEEEccccccccccccccccccccccccccccccccc
ccHEEccccHHHHcccccccccccEEEEEEEEEEEccccccEEEEEEEEcccccccccccccccccccccccccHHHHEcccccccccccccHHHHHHHHHcccccccccccHHHHHHHHccccEEEEEEEEccccccEEEccccEEEEcccEEEcccEEEEEEcccccEEEEEEEccccccccccccccccccHHHHHHHHHHHHHccccEEEEEccccccEEEEHHHHHHHHHccccEcEEEEEEEcccccccEEEEEEEEEcccccccccccccEEEEEEccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccccccccccccccccccccccccEEccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccEEEEEccccHHHHHHHHHHHHccccccccccccEEEEEcccccEEEEccccHHHHHHHHEEEEEEcHHHHHHcccccccccccccccccccccccccc
MEQLEAStnqelnqriplfrlpskILCRVVNIHLMAEQETDEVYAQItllpepsqnepttpdpcpadsprpkvhsfskvltasdtsthgGFSVLRKHateclppldmnqstptqELVAKDLHGYEWRFKhifrgqprrhllttgwstfvtskrlvagdtfvflrgengelhVGVRCLarqqssmpssvissqsmhLGVLATASHAVATQTMFVVYYKPRTSQFIISLNKYLEAVNNKFAVGMRYKmrfegedsperrfsgtvvgvedfsphwkdskwrslkvqwdepasitrpdrvspweiepfvasatpnlvqpvlaknkrprlsmevppldlpsaasapwsarlaqshnltqlsvtaedkridnhvawhhkhsdfssnsnfmsrtqsdgewltsprvkFSQQLFQEAIddnknisawpahsghstphpskpnndtLLEQVETgrktetgtscRLFGIELINhatssapsekvpvsslttegHIISTIsaaadsdgkSDIAKEFKEKKqeqvqvspkesqskqscltsnrsrtKVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKgqlhtrtkweivytddegdmmlvgddpwhEFCNMVKRIFIcssqdvkkmspgsklpmfsiegedillssdsaek
meqleastnqelnqriplfrlpsKILCRVVNIHLMAEQETDEVYAQITLLPEPSQNEPTTPDPCPADSPRPKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVAKDLHGYEWRFKHIfrgqprrhlLTTGWSTFVTSKRLVAGDTFVFLRGENGELHVGVRCLARQQSSMPSSVISSQSMHLGVLATASHAVATQTMFVVYYKPRTSQFIISLNKYLEAVNNKFAVGMRYKMRFegedsperrfsgtvvgvedfsphwkdskwrslkvqwdepasitrpdrvspWEIEPFvasatpnlvqpvlAKNKRPRLSMEVPPLDLPSAASAPWSARLAQSHNLTQLSVTAEDKRIDNHVAWHhkhsdfssnsnfMSRTQSDGEWLTSPRVKFSQQLFQEAIDDNKNISAWPAHSghstphpskpnnDTLLEQVETGRKTETGTSCRLFGIELINhatssapsekVPVSSLTTEGHIISTisaaadsdgKSDIAKEFKEkkqeqvqvspkesqskqscltsnrsrtkvqmqgvAVGRALDLTTLVGYDHLIDELEEMFdikgqlhtrtKWEIVYTDDEGDMMLVGDDPWHEFCNMVKRIFICSSQDVKKMspgsklpmfsiegedillssdsaek
MEQLEASTNQELNQRIPLFRLPSKILCRVVNIHLMAEQETDEVYAQITLLPEPSQNEPTTPDPCPADSPRPKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGELHVGVRCLARqqssmpssvissqsMHLGVLATASHAVATQTMFVVYYKPRTSQFIISLNKYLEAVNNKFAVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPASITRPDRVSPWEIEPFVASATPNLVQPVLAKNKRPRLSMEVppldlpsaasapwsarlaQSHNLTQLSVTAEDKRIDNHVAWHHKHSDFSSNSNFMSRTQSDGEWLTSPRVKFSQQLFQEAIDDNKNISAWPAHSGHSTPHPSKPNNDTLLEQVETGRKTETGTSCRLFGIELINHATSSAPSEKVPVSSLTTEGHIISTISAAADSDGKSDIAkefkekkqeqvqvSPKESQSKQSCLTSNRSRTKVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDDPWHEFCNMVKRIFICSSQDVKKMSPGSKLPMFSIEGEDILLSSDSAEK
**************RIPLFRLPSKILCRVVNIHLMAEQETDEVYAQITL******************************************SVLR**A**C*************ELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGELHVGVRCLA***************MHLGVLATASHAVATQTMFVVYYKPRTSQFIISLNKYLEAVNNKFAVGMRYKMRFE********FSGTVVGVEDFSPHWKDSKWRSLKVQWDEPASITRPDRVSPWEIEPFVASATPNLV****************************************************NHVAWH*********************************************************************************SCRLFGIELINH*************************************************************************MQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDDPWHEFCNMVKRIFICSS*******************************
*EQL**************FRLPSKILCRVVNIHLMAEQETDEVYAQIT**************************SFSKVLTASDTSTHGGFSVLRKHATECL*************LVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGELHVGVRCLAR**********************ASHAVATQTMFVVYYKPRTSQFIISLNKYLEAVNNKFAVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPASITRPDRVSPWEIEPFVASA************************************RLAQSHNLTQ**********************************************************************************************************************************************************KQ*QVQVSPKES****************QMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDDPWHEFCNMVKRIFIC*********************************
*********QELNQRIPLFRLPSKILCRVVNIHLMAEQETDEVYAQITLLPEP*********************SFSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGELHVGVRCLA************SQSMHLGVLATASHAVATQTMFVVYYKPRTSQFIISLNKYLEAVNNKFAVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPASITRPDRVSPWEIEPFVASATPNLVQPVLAKNKRPRLSMEVPPLDLPSAASAPWSARLAQSHNLTQLSVTAEDKRIDNHVAWHHKHSDFSSNSNFMSRTQSDGEWLTSPRVKFSQQLFQEAIDDNKNISAWP***********KPNNDTLLEQVETGRKTETGTSCRLFGIELINHAT*************TTEGHIISTISAAADSDGKSDIAKEF********************************MQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDDPWHEFCNMVKRIFICSSQDVKKMSPGSKLPMFSIEGEDILLSSDSAEK
MEQLEASTNQELNQRIPLFRLPSKILCRVVNIHLMAEQETDEVYAQITLLPEP*****************PKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGELHVGVRCLAR*************SMHLGVLATASHAVATQTMFVVYYKPRTSQFIISLNKYLEAVNNKFAVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPASITRPDRVSPWEIEPFVASATPNLVQPVLA***************************************************W***H*D*SSNSN*********EWLTSPRVKFSQ**F*********************************************TSCRLFGIELIN******************************************************************NRSRTKVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDDPWHEFCNMVKRIFICSSQDVKKM*************************
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MEQLEASTNQELNQRIPLFRLPSKILCRVVNIHLMAEQETDEVYAQITLLPEPSQNEPTTPDPCPADSPRPKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGELHVGVRCLARQQSSMPSSVISSQSMHLGVLATASHAVATQTMFVVYYKPRTSQFIISLNKYLEAVNNKFAVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPASITRPDRVSPWEIEPFVASATPNLVQPVLAKNKRPRLSMEVPPLDLPSAASAPWSARLAQSHNLTQLSVTAEDKRIDNHVAWHHKHSDFSSNSNFMSRTQSDGEWLTSPRVKFSQQLFQEAIDDNKNISAWPAHSGHSTPHPSKPNNDTLLEQVETGRKTETGTSCRLFGIELINHATSSAPSEKVPVSSLTTEGHIISTISAAADSDGKSDIAKEFKEKKQEQVQVSPKESQSKQSCLTSNRSRTKVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDDPWHEFCNMVKRIFICSSQDVKKMSPGSKLPMFSIEGEDILLSSDSAEK
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 ?
Query643 2.2.26 [Sep-21-2011]
Q9XED8638 Auxin response factor 9 O yes no 0.905 0.912 0.613 0.0
Q6YVY0678 Auxin response factor 7 O yes no 0.911 0.864 0.531 1e-172
Q9C5W9602 Auxin response factor 18 no no 0.832 0.888 0.530 1e-172
Q0JCZ4673 Auxin response factor 9 O no no 0.920 0.879 0.529 1e-169
Q8L7G0665 Auxin response factor 1 O no no 0.892 0.863 0.515 1e-165
Q5NB85699 Auxin response factor 1 O no no 0.934 0.859 0.475 1e-155
Q9C8N9606 Putative auxin response f no no 0.839 0.891 0.466 1e-147
Q9LQE3593 Putative auxin response f no no 0.821 0.890 0.458 1e-145
Q9C8N7598 Auxin response factor 22 no no 0.821 0.882 0.471 1e-144
Q9LQE8605 Putative auxin response f no no 0.839 0.892 0.448 1e-143
>sp|Q9XED8|ARFI_ARATH Auxin response factor 9 OS=Arabidopsis thaliana GN=ARF9 PE=1 SV=1 Back     alignment and function desciption
 Score =  715 bits (1846), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 390/636 (61%), Positives = 470/636 (73%), Gaps = 54/636 (8%)

Query: 1   MEQLEASTNQ-ELNQRIPLFRLPSKILCRVVNIHLMAEQETDEVYAQITLLPEPSQ-NEP 58
           MEQLEAST Q +LN   PLF LP KILC V+N+ L AE++TDEVYAQITL+P  ++ +EP
Sbjct: 39  MEQLEASTQQVDLNTMKPLFVLPPKILCNVMNVSLQAEKDTDEVYAQITLIPVGTEVDEP 98

Query: 59  TTPDPCPADSPRPKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVA 118
            +PDP P +  RPKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDM Q TPTQELVA
Sbjct: 99  MSPDPSPPELQRPKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDMTQQTPTQELVA 158

Query: 119 KDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGELHVGVRCLA 178
           +D+HGY+W+FKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGEL VGVR   
Sbjct: 159 EDVHGYQWKFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGELRVGVRRAN 218

Query: 179 RQQSSMPSSVISSQSMHLGVLATASHAVATQTMFVVYYKPRTSQFIISLNKYLEAVNNKF 238
            QQSSMPSSVISS SMHLGVLATA HA  T+TMF+VYYKPRTSQFIISLNKYLEA++NKF
Sbjct: 219 LQQSSMPSSVISSHSMHLGVLATARHATQTKTMFIVYYKPRTSQFIISLNKYLEAMSNKF 278

Query: 239 AVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPASITRPDRVSP 298
           +VGMR+KMRFEGEDSPERR+SGTV+GV+D SPHWKDSKWR L+V WDEPASI+RP++VSP
Sbjct: 279 SVGMRFKMRFEGEDSPERRYSGTVIGVKDCSPHWKDSKWRCLEVHWDEPASISRPNKVSP 338

Query: 299 WEIEPFVASATPNLVQPVLAKNKRPRLSMEVPPLDLPSAASAPWSARLAQSHNLTQLSVT 358
           WEIEPFV S   N+ + V+ KNKRPR   EV  LD+   AS  WS+ L Q H   Q  +T
Sbjct: 339 WEIEPFVNSE--NVPKSVMLKNKRPRQVSEVSALDVGITASNLWSSVLTQPHEFAQSCIT 396

Query: 359 AEDKRIDNHVAWHHKHSDFSSNSNFMSRTQSDGEWLTSPRVKFSQQLFQEAIDDNKNISA 418
           ++                                W +SP     QQ  ++A +D K  S 
Sbjct: 397 SQ--------------------------------W-SSP-----QQCHRDANEDAKK-SD 417

Query: 419 WPAHSGHSTPHPSKPN--NDTLLEQVETGRKTETGTSCRLFGIELINHATSSAPSEKVPV 476
           W  ++ +S  + +K +  ND ++  VE  +K ET  + RLFGI+L++ + +    +  P+
Sbjct: 418 W-LNNSYSVSNVAKDSTLNDQMVSPVEQ-KKPETTANYRLFGIDLMSSSLAVPEEKTAPM 475

Query: 477 SSLTTEGHIISTISAAADSDGKSDIAKEFKEKKQEQVQVSPKESQSKQSCLTSNRSRTKV 536
             +      IS  +  + SD KS+I+K  +EKKQE  + SPKE QSKQS  +S RSRTKV
Sbjct: 476 RPIN-----ISKPTMDSHSDPKSEISKVSEEKKQEPAEGSPKEVQSKQS--SSTRSRTKV 528

Query: 537 QMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDDP 596
           QMQGV VGRA+DL  L GY+ LID++E++FDIKG+L +R +WEIV+TDDEGDMMLVGDDP
Sbjct: 529 QMQGVPVGRAVDLNALKGYNELIDDIEKLFDIKGELRSRNQWEIVFTDDEGDMMLVGDDP 588

Query: 597 WHEFCNMVKRIFICSSQDVKKMSPGSKLPMFSIEGE 632
           W EFCNMVKRIFI S ++VKKM+PG++L M   E E
Sbjct: 589 WPEFCNMVKRIFIWSKEEVKKMTPGNQLRMLLREVE 624
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.
Arabidopsis thaliana (taxid: 3702)
>sp|Q6YVY0|ARFG_ORYSJ Auxin response factor 7 OS=Oryza sativa subsp. japonica GN=ARF7 PE=2 SV=1 Back     alignment and function description
>sp|Q9C5W9|ARFR_ARATH Auxin response factor 18 OS=Arabidopsis thaliana GN=ARF18 PE=2 SV=1 Back     alignment and function description
>sp|Q0JCZ4|ARFI_ORYSJ Auxin response factor 9 OS=Oryza sativa subsp. japonica GN=ARF9 PE=2 SV=1 Back     alignment and function description
>sp|Q8L7G0|ARFA_ARATH Auxin response factor 1 OS=Arabidopsis thaliana GN=ARF1 PE=1 SV=2 Back     alignment and function description
>sp|Q5NB85|ARFA_ORYSJ Auxin response factor 1 OS=Oryza sativa subsp. japonica GN=ARF1 PE=2 SV=1 Back     alignment and function description
>sp|Q9C8N9|ARFU_ARATH Putative auxin response factor 21 OS=Arabidopsis thaliana GN=ARF21 PE=3 SV=2 Back     alignment and function description
>sp|Q9LQE3|ARFO_ARATH Putative auxin response factor 15 OS=Arabidopsis thaliana GN=ARF15 PE=3 SV=2 Back     alignment and function description
>sp|Q9C8N7|ARFV_ARATH Auxin response factor 22 OS=Arabidopsis thaliana GN=ARF22 PE=2 SV=2 Back     alignment and function description
>sp|Q9LQE8|ARFN_ARATH Putative auxin response factor 14 OS=Arabidopsis thaliana GN=ARF14 PE=3 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 ?
Query643
255555629694 hypothetical protein RCOM_1311830 [Ricin 0.989 0.916 0.779 0.0
297742361682 unnamed protein product [Vitis vinifera] 0.984 0.928 0.719 0.0
359473930693 PREDICTED: auxin response factor 9-like 0.978 0.907 0.707 0.0
356504356691 PREDICTED: auxin response factor 9-like 0.978 0.910 0.704 0.0
356496084692 PREDICTED: auxin response factor 9-like 0.979 0.910 0.701 0.0
357469307666 Auxin response factor [Medicago truncatu 0.954 0.921 0.683 0.0
356520917664 PREDICTED: auxin response factor 9-like 0.956 0.926 0.678 0.0
359489584 764 PREDICTED: auxin response factor 18-like 0.984 0.828 0.638 0.0
356567961664 PREDICTED: auxin response factor 9-like 0.956 0.926 0.672 0.0
449533118669 PREDICTED: LOW QUALITY PROTEIN: auxin re 0.976 0.938 0.642 0.0
>gi|255555629|ref|XP_002518850.1| hypothetical protein RCOM_1311830 [Ricinus communis] gi|223541837|gb|EEF43383.1| hypothetical protein RCOM_1311830 [Ricinus communis] Back     alignment and taxonomy information
 Score = 1005 bits (2598), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 505/648 (77%), Positives = 561/648 (86%), Gaps = 12/648 (1%)

Query: 1   MEQLEASTNQELNQRIPLFRLPSKILCRVVNIHLMAEQETDEVYAQITLLPEPSQNEPTT 60
           MEQLEASTNQELNQR+PLF LPSKILCRV+NIHL+AEQ+TDEVYAQITLLPE  Q EPT+
Sbjct: 52  MEQLEASTNQELNQRVPLFNLPSKILCRVINIHLLAEQDTDEVYAQITLLPESDQTEPTS 111

Query: 61  PDPCPAD-SPRPKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVAK 119
           PDP PA+ S RP VHSF KVLTASDTSTHGGFSVLRKHATECLP LDM Q TPTQELVAK
Sbjct: 112 PDPSPAEPSRRPAVHSFCKVLTASDTSTHGGFSVLRKHATECLPQLDMTQPTPTQELVAK 171

Query: 120 DLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGELHVGVRCLAR 179
           DLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGD+FVFLRGENGEL VGVR LAR
Sbjct: 172 DLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDSFVFLRGENGELRVGVRRLAR 231

Query: 180 QQSSMPSSVISSQSMHLGVLATASHAVATQTMFVVYYKPRTSQFIISLNKYLEAVNNKFA 239
           QQSSMPSSVISSQSMHLGVLATASHAVATQT+FVVYYKPRTSQFIISLNKYLEA+NNKF+
Sbjct: 232 QQSSMPSSVISSQSMHLGVLATASHAVATQTLFVVYYKPRTSQFIISLNKYLEAINNKFS 291

Query: 240 VGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPASITRPDRVSPW 299
           VGMR+KMRFEGEDSPERRFSGT+VGVEDFSPHW DSKWR LKVQWDEPASI RPD+VSPW
Sbjct: 292 VGMRFKMRFEGEDSPERRFSGTIVGVEDFSPHWLDSKWRQLKVQWDEPASIPRPDKVSPW 351

Query: 300 EIEPFVASATPNLVQPVLAKNKRPRLSMEVPPLDLPSAASAPWSARLAQSHNLTQLSVTA 359
           EIEPF ASA  N+ QPV  KNKRPR  +EVP LDL S AS  W++RL QSH+LTQLSVTA
Sbjct: 352 EIEPFSASAPSNISQPVPLKNKRPRPPIEVPTLDLSSTASPLWNSRLTQSHDLTQLSVTA 411

Query: 360 EDKRIDNHVAWHHKHSDFSSNSNFMSRTQSDGEWLTSPRVKFSQQLFQEAIDDNKNISAW 419
           E KR +NH+ WHHK +D +S+SN +SRTQ++G WL+SP V  SQ LFQE  +D+K++S W
Sbjct: 412 EGKRNENHIMWHHKQNDINSHSNSISRTQTEGGWLSSPLVNVSQHLFQEVTEDSKSVSNW 471

Query: 420 PAHSGHSTPHPSKPNNDTLLEQVETGRKTETGTSCRLFGIELINHATSSAPSEKVP---- 475
           P  SG+STP  SK  ND++L+ VE GRK++  TS RLFGIELINH+ SS P+EK P    
Sbjct: 472 PVVSGYSTPQSSK-LNDSILDPVEKGRKSDVATSYRLFGIELINHSASSLPTEKAPAQPL 530

Query: 476 -VSSLTTEGHIISTISAAADSDGKSDIAKEFKEKKQEQVQVSPKESQSKQSCLTSNRSRT 534
            VSS TTE H++ST+S AADSD KSDI+   KE+K EQ+ VSPK++QS+QS   S RSRT
Sbjct: 531 SVSSGTTEAHVVSTLS-AADSDQKSDIS---KERKPEQLHVSPKDAQSRQSS-ASTRSRT 585

Query: 535 KVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGD 594
           KVQMQGVAVGRA+DLT + GY+ L+DELEEMFDIKGQLH R KWEIVYTDDEGDMMLVGD
Sbjct: 586 KVQMQGVAVGRAIDLTMIKGYNQLLDELEEMFDIKGQLHPRDKWEIVYTDDEGDMMLVGD 645

Query: 595 DPWHEFCNMVKRIFICSSQDVKKMSPGSKLPMFSIEGEDILLSSDSAE 642
           DPW EFCNMV+RIFICSSQDVKKM PGSKLPMFS EGE  ++SSDSA+
Sbjct: 646 DPWPEFCNMVRRIFICSSQDVKKMMPGSKLPMFSTEGEGTVISSDSAD 693

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|297742361|emb|CBI34510.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|359473930|ref|XP_002265162.2| PREDICTED: auxin response factor 9-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|356504356|ref|XP_003520962.1| PREDICTED: auxin response factor 9-like [Glycine max] Back     alignment and taxonomy information
>gi|356496084|ref|XP_003516900.1| PREDICTED: auxin response factor 9-like [Glycine max] Back     alignment and taxonomy information
>gi|357469307|ref|XP_003604938.1| Auxin response factor [Medicago truncatula] gi|355505993|gb|AES87135.1| Auxin response factor [Medicago truncatula] Back     alignment and taxonomy information
>gi|356520917|ref|XP_003529106.1| PREDICTED: auxin response factor 9-like [Glycine max] Back     alignment and taxonomy information
>gi|359489584|ref|XP_002264072.2| PREDICTED: auxin response factor 18-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|356567961|ref|XP_003552183.1| PREDICTED: auxin response factor 9-like [Glycine max] Back     alignment and taxonomy information
>gi|449533118|ref|XP_004173524.1| PREDICTED: LOW QUALITY PROTEIN: auxin response factor 9-like, partial [Cucumis sativus] 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 ?
Query643
TAIR|locus:2138096638 ARF9 "auxin response factor 9" 0.603 0.608 0.648 4.2e-184
TAIR|locus:2076765602 ARF18 "auxin response factor 1 0.499 0.533 0.674 3.3e-157
TAIR|locus:2039124622 ARF11 "auxin response factor 1 0.510 0.527 0.682 2e-155
TAIR|locus:2025991665 ARF1 "auxin response factor 1" 0.502 0.485 0.655 2.5e-149
TAIR|locus:2174013 859 ARF2 "auxin response factor 2" 0.499 0.373 0.632 2.4e-142
TAIR|locus:2036288598 ARF22 "auxin response factor 2 0.500 0.538 0.559 3.5e-133
TAIR|locus:2009298606 ARF21 "auxin response factor 2 0.494 0.524 0.553 1.3e-131
TAIR|locus:2014731605 ARF14 "auxin response factor 1 0.503 0.535 0.541 2.4e-130
TAIR|locus:2026145593 ARF12 "auxin response factor 1 0.503 0.546 0.541 1.7e-129
TAIR|locus:2206717590 ARF20 "auxin response factor 2 0.488 0.532 0.541 1.7e-127
TAIR|locus:2138096 ARF9 "auxin response factor 9" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1300 (462.7 bits), Expect = 4.2e-184, Sum P(2) = 4.2e-184
 Identities = 256/395 (64%), Positives = 295/395 (74%)

Query:     1 MEQLEASTNQ-ELNQRIPLFRLPSKILCRVVNIHLMAEQETDEVYAQITLLPEPSQ-NEP 58
             MEQLEAST Q +LN   PLF LP KILC V+N+ L AE++TDEVYAQITL+P  ++ +EP
Sbjct:    39 MEQLEASTQQVDLNTMKPLFVLPPKILCNVMNVSLQAEKDTDEVYAQITLIPVGTEVDEP 98

Query:    59 TTPDPCPADSPRPKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVA 118
              +PDP P +  RPKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDM Q TPTQELVA
Sbjct:    99 MSPDPSPPELQRPKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDMTQQTPTQELVA 158

Query:   119 KDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGELHVGVRCLA 178
             +D+HGY+W+FKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGEL VGVR   
Sbjct:   159 EDVHGYQWKFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGELRVGVRRAN 218

Query:   179 RXXXXXXXXXXXXXXMHLGVLATASHAVATQTMFVVYYKPRTSQFIISLNKYLEAVNNKF 238
                            MHLGVLATA HA  T+TMF+VYYKPRTSQFIISLNKYLEA++NKF
Sbjct:   219 LQQSSMPSSVISSHSMHLGVLATARHATQTKTMFIVYYKPRTSQFIISLNKYLEAMSNKF 278

Query:   239 AVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPASITRPDRVSP 298
             +VGMR+KMRFEGEDSPERR+SGTV+GV+D SPHWKDSKWR L+V WDEPASI+RP++VSP
Sbjct:   279 SVGMRFKMRFEGEDSPERRYSGTVIGVKDCSPHWKDSKWRCLEVHWDEPASISRPNKVSP 338

Query:   299 WEIEPFVASATPNLVQPVLAKNKRPRLSMEVXXXXXXXXXXXXXXXXXXQSHNLTQLSVT 358
             WEIEPFV S   N+ + V+ KNKRPR   EV                  Q H   Q  +T
Sbjct:   339 WEIEPFVNSE--NVPKSVMLKNKRPRQVSEVSALDVGITASNLWSSVLTQPHEFAQSCIT 396

Query:   359 AE---DKRIDNHVAWHHKHSDFSSNSNFMSRTQSD 390
             ++    ++         K SD+ +NS  +S    D
Sbjct:   397 SQWSSPQQCHRDANEDAKKSDWLNNSYSVSNVAKD 431
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
GO:0005515 "protein binding" evidence=IPI
TAIR|locus:2076765 ARF18 "auxin response factor 18" [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:2025991 ARF1 "auxin response factor 1" [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:2036288 ARF22 "auxin response factor 22" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2009298 ARF21 "auxin response factor 21" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2014731 ARF14 "auxin response factor 14" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2026145 ARF12 "auxin response factor 12" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2206717 ARF20 "auxin response factor 20" [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) ?
Q9XED8ARFI_ARATHNo assigned EC number0.61320.90510.9122yesno
Q6YVY0ARFG_ORYSJNo assigned EC number0.53150.91130.8643yesno

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 ?
Query643
pfam0650783 pfam06507, Auxin_resp, Auxin response factor 5e-38
pfam02309188 pfam02309, AUX_IAA, AUX/IAA family 2e-35
pfam0236297 pfam02362, B3, B3 DNA binding domain 7e-28
smart0101996 smart01019, B3, B3 DNA binding domain 4e-25
cd1001798 cd10017, B3_DNA, Plant-specific B3-DNA binding dom 9e-20
>gnl|CDD|191545 pfam06507, Auxin_resp, Auxin response factor Back     alignment and domain information 
 Score =  135 bits (341), Expect = 5e-38
 Identities = 49/83 (59%), Positives = 63/83 (75%), Gaps = 3/83 (3%)

Query: 202 ASHAVATQTMFVVYYKPR--TSQFIISLNKYLEAVNNKFAVGMRYKMRFEGEDSPERRFS 259
           A+HA +T + F V+Y PR  TS+F++   KYL+A+NN F+VGMR+KMRFE EDS ERRFS
Sbjct: 1   AAHAASTGSPFHVFYNPRASTSEFVVPYAKYLKAMNNPFSVGMRFKMRFETEDSSERRFS 60

Query: 260 GTVVGVEDFSP-HWKDSKWRSLK 281
           GT+ GV D  P  W +SKWRSL+
Sbjct: 61  GTISGVSDLDPIRWPNSKWRSLQ 83

A conserved region of auxin-responsive transcription factors. Length = 83
>gnl|CDD|216968 pfam02309, AUX_IAA, AUX/IAA family Back     alignment and domain information
>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

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 643
PF02309215 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The A 100.0
PF0650783 Auxin_resp: Auxin response factor; InterPro: IPR01 100.0
PF02362100 B3: B3 DNA binding domain; InterPro: IPR003340 Two 99.73
KOG06441113 consensus Uncharacterized conserved protein, conta 99.54
PF09217156 EcoRII-N: Restriction endonuclease EcoRII, N-termi 98.13
PF03754114 DUF313: Domain of unknown function (DUF313) ; Inte 97.56
PF0056484 PB1: PB1 domain; InterPro: IPR000270 The Phox and 96.88
smart0066681 PB1 PB1 domain. Phox and Bem1p domain, present in 96.42
cd0640782 PB1_NLP A PB1 domain is present in NIN like protei 96.32
cd0639891 PB1_Joka2 The PB1 domain is present in the Nicotia 96.27
cd0599281 PB1 The PB1 domain is a modular domain mediating s 96.24
cd0639681 PB1_NBR1 The PB1 domain is an essential part of NB 95.85
cd0640380 PB1_Par6 The PB1 domain is an essential part of Pa 95.76
cd0640181 PB1_TFG The PB1 domain found in TFG protein, an on 94.76
cd0640986 PB1_MUG70 The MUG70 protein is a product of the me 94.15
cd0640483 PB1_aPKC PB1 domain is an essential modular domain 93.16
cd0640886 PB1_NoxR The PB1 domain is present in the Epichloe 92.48
cd0640287 PB1_p62 The PB1 domain is an essential part of p62 92.0
cd0639782 PB1_UP1 Uncharacterized protein 1. The PB1 domain 90.35
>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 
Probab=100.00  E-value=3.8e-37  Score=307.11  Aligned_cols=94  Identities=46%  Similarity=0.802  Sum_probs=0.0

Q ss_pred             CCcceeEEEecCceeeeeecCCCCCChHHHHHHHHHHh---hhc----------cc--cCCCCceeEEEecCCCCeEEcc
Q 006471          529 SNRSRTKVQMQGVAVGRALDLTTLVGYDHLIDELEEMF---DIK----------GQ--LHTRTKWEIVYTDDEGDMMLVG  593 (643)
Q Consensus       529 ~~~~~vKV~m~G~~vgR~vDLs~~~~Y~eL~~~L~~MF---~~~----------g~--l~~~~~~~v~Y~D~eGD~mlvG  593 (643)
                      ..++||||+|||++|||||||++|+||++|+.+|++||   +|.          +.  |...++|+|||+|+||||||||
T Consensus       107 ~~~~~vKV~mdG~~igRkVDL~~~~sY~~L~~~L~~MF~~~~i~~~~~~~~~~~~~~~~~~~~~~~l~Y~D~egd~mlvG  186 (215)
T PF02309_consen  107 SSRSYVKVNMDGVPIGRKVDLSAYSSYEELSSALEKMFSCFSIEQCGSHGLNESGLLDLLNGSEYVLVYEDKEGDWMLVG  186 (215)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cCCceeEEEecCcccceecCHHHhhCHHHHHHHHHHhcCCCCccccccccccchhhccccCCcceeEEEECCCCCEEEec
Confidence            46899999999999999999999999999999999999   666          22  3356799999999999999999


Q ss_pred             CCChHHHHhcceeEEEeeccccccCCCCC
Q 006471          594 DDPWHEFCNMVKRIFICSSQDVKKMSPGS  622 (643)
Q Consensus       594 D~PW~~F~~~vkri~I~~~~e~~~~~~~~  622 (643)
                      ||||+|||++||||+||+.+|++||+|+.
T Consensus       187 D~PW~~F~~~vkRl~I~~~~e~~~~~~r~  215 (215)
T PF02309_consen  187 DVPWEEFVKSVKRLRIMKSSEAKGLAPRA  215 (215)
T ss_dssp             -----------------------------
T ss_pred             CCCHHHHHHHhhccEEecHHHhcccCCCC
Confidence            99999999999999999999999999874

The plant hormone auxin (indole-3-acetic acid, IAA) regulates diverse cellular and developmental responses in plants, including cell division, expansion, differentiation and patterning of embryo responses []. Auxin can regulate the gene expression of several families, including GH3 and SAUR, as well as Aux/IAA itself. The Aux/IAA proteins act as repressors of auxin-induced gene expression, possibly through modulating the activity of DNA-binding auxin response factors (ARFs) (IPR010525 from INTERPRO). Aux/IAA and ARF are thought to interact through C-terminal protein-protein interaction domains found in both Aux/IAA and ARF. Recent evidence suggests that Aux/IAA proteins can also mediate light responses []. Some members of the AUX/IAA family are longer and contain an N-terminal DNA binding domain [] and may have an early function in the establishment of vascular and body patterns in embryonic and post-embryonic development in some plants.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2P1N_F 2P1Q_C 2P1O_C.
>PF06507 Auxin_resp: Auxin response factor; InterPro: IPR010525 This pattern represents a conserved region of auxin-responsive transcription factors 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
>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
>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
>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
>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
>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
>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
>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
>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
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA 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
>cd06397 PB1_UP1 Uncharacterized protein 1 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 ?
Query643
1wid_A130 Solution Structure Of The B3 Dna-Binding Domain Of 9e-09
>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1 Length = 130 Back     alignment and structure 
Iteration: 1

 Score = 58.9 bits (141), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 33/103 (32%), Positives = 52/103 (50%), Gaps = 2/103 (1%)
Query: 76  FSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVAKDLHGYEWRFKHIFRGQ 135
           F K +T SD        + + HA +  P    N S     L  +D++G  WRF++ +   
Sbjct: 14  FEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNS 73
Query: 136 PRRHLLTTGWSTFVTSKRLVAGDTFVFLR--GENGELHVGVRC 176
            + ++LT GWS FV  K L AGD   F R  G++ +L++G + 
Sbjct: 74  SQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKS 116
  Database: pdbaa

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query643
1wid_A130 DNA-binding protein RAV1; DNA-binding domain, stru 4e-44
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-06
>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 =  152 bits (386), Expect = 4e-44
 Identities = 37/127 (29%), Positives = 56/127 (44%)

Query: 65  PADSPRPKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVAKDLHGY 124
              S R     F K +T SD        + + HA +  P    N S     L  +D++G 
Sbjct: 3   SGSSGRSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGK 62

Query: 125 EWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRGENGELHVGVRCLARQQSSM 184
            WRF++ +    + ++LT GWS FV  K L AGD   F R    +  + +   +R  S +
Sbjct: 63  VWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSDL 122

Query: 185 PSSVISS 191
            +S  SS
Sbjct: 123 DASGPSS 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 ?
Query643
1wid_A130 DNA-binding protein RAV1; DNA-binding domain, stru 99.96
4i1k_A146 B3 domain-containing transcription factor VRN1; B3 99.76
1yel_A104 AT1G16640; CESG, protein structure initiative, str 99.6
1wmh_B86 Partitioning defective-6 homolog alpha; kinase, PB 95.42
1vd2_A89 Protein kinase C, IOTA type; PB1 domain, OPCA moti 95.05
1na6_A404 Ecorii, restriction endonuclease ecorii; site-spec 93.17
1q1o_A98 Cell division control protein 24; PB1 domain, PCCR 91.01
2kkc_A102 Sequestosome-1; P62, PB1, autophagy, ubiquitin-pro 90.99
2ktr_A117 Sequestosome-1; autophagy, NF-KB signaling, HOMO-o 87.65
1oey_A83 P67-PHOX, neutrophil cytosol factor 2; immune syst 86.4
>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=6.2e-29  Score=229.44  Aligned_cols=114  Identities=30%  Similarity=0.464  Sum_probs=104.3

Q ss_pred             CCCCceeeEEEecccccCCCCCceEEecchhhhcCCCCCCCCCCCceEEEEEeCCCCeEEEEEEEeCCCcceeeccchhh
Q 006471           68 SPRPKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWST  147 (643)
Q Consensus        68 ~~~~~~~~F~K~LT~SDv~~~grfsVPk~~Ae~~fP~Ld~~~~~p~q~L~v~D~~G~~W~Fr~~yrg~~rr~lLTtGWs~  147 (643)
                      ..++..++|+|+||+|||+++++|+||+++|+.|||+++..+..+.++|.++|.+|++|+|+|+||+++++|+|++||+.
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            34567799999999999999999999999999999999987667889999999999999999999999999999999999


Q ss_pred             hhcccCCCCCCEEEEEecCC--CcEEEEEEEccccC
Q 006471          148 FVTSKRLVAGDTFVFLRGEN--GELHVGVRCLARQQ  181 (643)
Q Consensus       148 FV~~K~L~aGD~VvF~R~~~--g~l~VgIRRa~~~~  181 (643)
                      ||++|+|++||+|+|++.++  +.|+|++||+....
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            99999999999999999764  57999999988764
>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
>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
>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
>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
>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
>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
>2ktr_A Sequestosome-1; autophagy, NF-KB signaling, HOMO-oligomer, PB1 dimer, signaling protein, transport protein; NMR {Rattus norvegicus} Back     alignment and structure
>1oey_A P67-PHOX, neutrophil cytosol factor 2; immune system, PB1 heterodimer/complex, NADPH oxidase, PB1 D heterodimerization; 2.0A {Homo sapiens} SCOP: d.15.2.2 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 643
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 3e-22
d1yela1102 b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabid 7e-14
>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 (307), Expect = 1e-33
 Identities = 36/119 (30%), Positives = 57/119 (47%), Gaps = 4/119 (3%)

Query: 70  RPKVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVAKDLHGYEWRFK 129
           R     F K +T SD        + + HA +  P    N S     L  +D++G  WRF+
Sbjct: 1   RSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFR 60

Query: 130 HIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLR--GENGELHVGVRCLARQQSSMPS 186
           + +    + ++LT GWS FV  K L AGD   F R  G++ +L++G +   R  S + +
Sbjct: 61  YSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKS--RSGSDLDA 117
>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 ?
Query643
d1wida_117 DNA-binding protein RAV1 {Thale cress (Arabidopsis 99.94
d1na6a1175 Restriction endonuclease EcoRII, N-terminal domain 99.79
d1yela1102 At1g16640 {Thale cress (Arabidopsis thaliana) [Tax 99.5
d2bkfa185 Next to BRCA1 gene 1 protein, NBR1 (KIAA0049) {Hum 95.85
d1ip9a_85 Bud emergence mediator Bemp1 {Baker's yeast (Sacch 94.57
d1wmhb_82 Partitioning defective-6 homolog alpha, PAR-6 alph 84.66
>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=8.4e-27  Score=208.14  Aligned_cols=109  Identities=29%  Similarity=0.473  Sum_probs=102.1

Q ss_pred             ceeeEEEecccccCCCCCceEEecchhhhcCCCCCCCCCCCceEEEEEeCCCCeEEEEEEEeCCCcceeeccchhhhhcc
Q 006471           72 KVHSFSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTS  151 (643)
Q Consensus        72 ~~~~F~K~LT~SDv~~~grfsVPk~~Ae~~fP~Ld~~~~~p~q~L~v~D~~G~~W~Fr~~yrg~~rr~lLTtGWs~FV~~  151 (643)
                      ..++|.|+||+|||++++||+||+++|+.|||+++.....+++.|.+.|.+|++|+|+|+||++.++|+|++||..||++
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            45899999999999999999999999999999999988888999999999999999999999888899999999999999


Q ss_pred             cCCCCCCEEEEEec--CCCcEEEEEEEcccc
Q 006471          152 KRLVAGDTFVFLRG--ENGELHVGVRCLARQ  180 (643)
Q Consensus       152 K~L~aGD~VvF~R~--~~g~l~VgIRRa~~~  180 (643)
                      ++|++||+|+|++.  ++++|+|++||+...
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            99999999999996  567899999998654
>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
>d1wmhb_ d.15.2.2 (B:) Partitioning defective-6 homolog alpha, PAR-6 alpha {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure