Citrus Sinensis ID: 004792

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
MAAAASSSEVSMKSCNETGRIPMEGQNSNSTTSGVKRVGDPEMALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEPPPPPPPRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEPALAPPALNSLPMPRPKRPRSNMLPSSPDSSVLTREGSSKLNVDPSSATGFSRVLQGQEFSTLRGNFAERESNESDTAEKSVVWPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLMPPLPPSNFENSAHSRELMPKSAMVQDQEAGKSKDCKLFGIPLFSNHVMPEPVVSHRNTMNEPAGNLDQQFRAFESDQKSDHSKSSKLADDNQVFNEHEKPSQPSQTHTKDVRSKTQCGSTRSCTKVPLPH
ccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccEEEEcccccHHHHHccccHHHcccccccccccccEEEEEEccccccccccHHHEEEEEcccccccccccccccccccccccccccEEEEEcccccccccccEEccccccccccccccccccccccEEEEEcccccEEEEEEEEccccEEEEcccccHHHcccccccccEEEEEEcccccEEEEEEEEcccccccccccccccccccHHHHHHHHccccccEEEEEEccccccccccccHHHHHHHHccccccccEEEEEEEcccccccEEEEEEEEEEcccccccccccccEEEEEEccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccc
cHHHHHccccccccccccccccHHHHcccccccccccccccccHHHHHHHHHHccccccccccccEEEEcccccHHHHHHcccccHccccccccccccEEEEEEEEEEEccccccEEEEEEEEcccccccccccccccccccccccccccEEEEEccccccccccccHHHHHHHHHcccccccccccHHHHHHHHHccccEEEEEEEccccccEEEccccEEEEcccEEEcccEEEEEEcccccEEEEEEEccccccccccccEcccccHHHHHHHHHHHHHcccEEEEEEccccccccEEEEHHHHHHHHccccEEEEEEEEEEcccccccEcccEEEEEccccccccccccccEEEEEEccccccccccccccccEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHcccccccccEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
maaaasssevSMKScnetgripmegqnsnsttsgvkrvgdpeMALYTELWHAcagplvtvpregervyyfpqghieqveastnqvadqqmpvydlpskILCRVINVqlkaepdtdEVFAQVTllpesnqdenavekeppppppprfhvhsfcktltasdtsthggFSVLRrhadeclppldmsrqpptqelaakdlhgnewrfrhifrgqprrhllqsgWSVFvsskrlvagdafiflrgengelRVGVRRAMrqqgnvpssvisshsMHLGVLATAWHAVSTGTMftvyykprtspsefivpyDQYMESIKNNYSIGMrfkmrfegeeapeqrftgtivgiedadpqrwrdskwrclkvrwdetstiprpervslwkiepalappalnslpmprpkrprsnmlpsspdssvltregssklnvdpssatgfsrvlqgqEFSTLRGnfaeresnesdtaeksvvwppslddekidVVSASrrygsenwvppgrhepvytdllsgfganadpshgfsspfadavpvrksvldqegkfnlvarpwslmpsgpslkmpesnakvpvqggdvnyqvrgnvryggfgdypmlngnrvehshgnwlmpplppsnfensahsrelmpksamvqdqeagkskdcklfgiplfsnhvmpepvvshrntmnepagnldQQFRAfesdqksdhsksskladdnqvfnehekpsqpsqthtkdvrsktqcgstrsctkvplph
maaaasssevsmKSCNEtgripmegqnsnsttsgvKRVGDPEMALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEPPPPPPPRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPeqrftgtivgiedadpqrwrdskwrclkvrwdetstiprpervslwkiepalappalnslpmprpkrprsnmlpsspdssvltregssklnvdpssatgfsrvlqgqeFSTLRGNfaeresnesdtaeksvvwppslddekiDVVSASRrygsenwvppgrHEPVYTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLMPPLPPSNFENSAHSRELMPKSAMVQDQEAGKSKDCKLFGIPLFSNHVMPEPVVSHRNTMNEPAGNLDQQFRAFESDQKSDHSKSSKLADDNQVFNehekpsqpsqthtkdvrsktqcgstrsctkvplph
MaaaasssEVSMKSCNETGRIPMEGQNSNSTTSGVKRVGDPEMALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEpppppppRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEpalappalnslpmpRPKRPRSNMLPSSPDSSVLTREGSSKLNVDPSSATGFSRVLQGQEFSTLRGNFAERESNESDTAEKSVVWPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLMPPLPPSNFENSAHSRELMPKSAMVQDQEAGKSKDCKLFGIPLFSNHVMPEPVVSHRNTMNEPAGNLDQQFRAFEsdqksdhsksskLADDNQVFNEHEKPSQPSQTHTKDVRSKTQCGSTRSCTKVPLPH
*****************************************EMALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTL**************************SFCKTLT*********FSVL*************************DLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRA**********VISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEG****EQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIE*********************************************************************************************************NWV****HEPVYTDLLSGFG**********************VLDQEGKFNLVARPW*********************GGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNW************************************CKLFGIPLFSNHV***********************************************************************************
*********************************************YTELWHACAGPLVTVPREGERVYYFPQGHIEQV***********MPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLL************************HSFCKTLTASDTSTHGGFSVLRRHADECLPPL***********AAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEPAL****************************************************************************************************************************************************************************************************************************************************************I***********************************************************************************TKVP***
**************CNETGRIPMEG*********VKRVGDPEMALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPES**************PPPRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEPALAPPALNSLPMPRP******************************SATGFSRVLQGQEFSTLRGNF**************VVWPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLMPPLPPSNFENSAHSRELMPK***********SKDCKLFGIPLFSNHVMPEPVVSHRNTMNEPAGNLDQQFRAF**************ADDNQVFNE**********************************
*****************************************EMALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPES****************PRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSV*SSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEPALAPPALNSLPMPRPK***************************************************************************************************YTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNA********VN****GNVRYGGFGD**************************************************KDCKLFGIPLFS**************************************************************************************
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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SSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MAAAASSSEVSMKSCNETGRIPMEGQNSNSTTSGVKRVGDPEMALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEPPPPPPPRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEPALAPPALNSLPMPRPKRPRSNMLPSSPDSSVLTREGSSKLNVDPSSATGFSRVLQGQEFSTLRGNFAERESNESDTAEKSVVWPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLMPPLPPSNFENSAHSRELMPKSAMVQDQEAGKSKDCKLFGIPLFSNHVMPEPVVSHRNTMNEPAGNLDQQFRAFESDQKSDHSKSSKLADDNQVFNEHEKPSQPSQTHTKDVRSKTQCGSTRSCTKVPLPH
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 ?
Query730 2.2.26 [Sep-21-2011]
Q94JM3 859 Auxin response factor 2 O yes no 0.943 0.802 0.684 0.0
Q5JK20 808 Auxin response factor 4 O yes no 0.913 0.825 0.559 0.0
A2ZET6 853 Auxin response factor 23 N/A no 0.919 0.786 0.566 0.0
Q2QQX6 841 Auxin response factor 24 no no 0.912 0.791 0.553 0.0
Q2R3F5 853 Auxin response factor 23 no no 0.919 0.786 0.566 0.0
Q8L7G0665 Auxin response factor 1 O no no 0.495 0.544 0.701 1e-151
Q6YVY0678 Auxin response factor 7 O no no 0.535 0.576 0.644 1e-150
Q0JCZ4673 Auxin response factor 9 O no no 0.494 0.536 0.679 1e-144
Q9ZPY6622 Auxin response factor 11 no no 0.501 0.588 0.622 1e-132
Q9XED8638 Auxin response factor 9 O no no 0.483 0.553 0.641 1e-132
>sp|Q94JM3|ARFB_ARATH Auxin response factor 2 OS=Arabidopsis thaliana GN=ARF2 PE=1 SV=2 Back     alignment and function desciption
 Score =  969 bits (2505), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 491/717 (68%), Positives = 563/717 (78%), Gaps = 28/717 (3%)

Query: 24  EGQNSNSTTSGV-KRVGDPEMALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEAST 82
           EGQ SNST S   +R  DPE ALY ELWHACAGPLVTVPR+ +RV+YFPQGHIEQVEAST
Sbjct: 36  EGQKSNSTRSAAAERALDPEAALYRELWHACAGPLVTVPRQDDRVFYFPQGHIEQVEAST 95

Query: 83  NQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEPPPPP 142
           NQ A+QQMP+YDLPSK+LCRVINV LKAE DTDEV+AQ+TLLPE+NQDENA+EKE P PP
Sbjct: 96  NQAAEQQMPLYDLPSKLLCRVINVDLKAEADTDEVYAQITLLPEANQDENAIEKEAPLPP 155

Query: 143 PPRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWR 202
           PPRF VHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQEL AKDLH NEWR
Sbjct: 156 PPRFQVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELVAKDLHANEWR 215

Query: 203 FRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSS 262
           FRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSS
Sbjct: 216 FRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSS 275

Query: 263 VISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFK 322
           VISSHSMHLGVLATAWHA+STGTMFTVYYKPRTSPSEFIVP+DQYMES+KNNYSIGMRFK
Sbjct: 276 VISSHSMHLGVLATAWHAISTGTMFTVYYKPRTSPSEFIVPFDQYMESVKNNYSIGMRFK 335

Query: 323 MRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEPA 382
           MRFEGEEAPEQRFTGTIVGIE++DP RW  SKWR LKVRWDETS+IPRP+RVS WK+EPA
Sbjct: 336 MRFEGEEAPEQRFTGTIVGIEESDPTRWPKSKWRSLKVRWDETSSIPRPDRVSPWKVEPA 395

Query: 383 LAPPALNSLPMPRPKRPRSNMLPSSPDSSVLTREGSSKLNVDPSSATGFSRVLQGQEFST 442
           LAPPAL+ +PMPRPKRPRSN+ PSSPDSS+LTREG++K N+DP  A+G SRVLQGQE+ST
Sbjct: 396 LAPPALSPVPMPRPKRPRSNIAPSSPDSSMLTREGTTKANMDPLPASGLSRVLQGQEYST 455

Query: 443 LRGNFAERESNESDTAEKSVVWPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLS 502
           LR      ES E D  E SVVW  S DD+K+DVVS SRRYGSENW+   RHEP YTDLLS
Sbjct: 456 LRTKHT--ESVECDAPENSVVWQSSADDDKVDVVSGSRRYGSENWMSSARHEPTYTDLLS 513

Query: 503 GFGANADPSHGFSSPFAD-----AVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESN 557
           GFG N DPSHG   PF D     ++P ++ + D EGKF+ +A  W ++ SG SLK+ ES 
Sbjct: 514 GFGTNIDPSHGQRIPFYDHSSSPSMPAKRILSDSEGKFDYLANQWQMIHSGLSLKLHES- 572

Query: 558 AKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLMPPLPPSNFENSAH---- 613
            KVP    D + Q R NV+Y    +YP+LNG   E++ GNW + P   + +E   +    
Sbjct: 573 PKVPA-ATDASLQGRCNVKY---SEYPVLNGLSTENAGGNWPIRPRALNYYEEVVNAQAQ 628

Query: 614 --SRELMPKSAMVQDQEAGKSKD--CKLFGIPLFSNHVMPEPVVSHRNTMNEPAGNLDQQ 669
             +RE + K      +E  KS++  C+LFGIPL +N    +  +S RN +N+ AG    Q
Sbjct: 629 AQAREQVTKQPFTIQEETAKSREGNCRLFGIPLTNNMNGTDSTMSQRNNLNDAAGLT--Q 686

Query: 670 FRAFESDQKSDHSKSSKLADDNQVFNEHEKPSQPSQTHTKDVRSKTQCGSTRSCTKV 726
             + +    SD SK SK  +D++   E  +P Q +  H KD ++KT   S+RSCTKV
Sbjct: 687 IASPKVQDLSDQSKGSKSTNDHR---EQGRPFQTNNPHPKDAQTKT--NSSRSCTKV 738
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. Promotes flowering, stamen development, floral organ abscission and fruit dehiscence. Functions independently of ethylene and cytokinin response pathways. May act as a repressor of cell division and organ growth.
Arabidopsis thaliana (taxid: 3702)
>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|A2ZET6|ARFW_ORYSI Auxin response factor 23 OS=Oryza sativa subsp. indica GN=ARF23 PE=2 SV=1 Back     alignment and function description
>sp|Q2QQX6|ARFX_ORYSJ Auxin response factor 24 OS=Oryza sativa subsp. japonica GN=ARF24 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
>sp|Q8L7G0|ARFA_ARATH Auxin response factor 1 OS=Arabidopsis thaliana GN=ARF1 PE=1 SV=2 Back     alignment and function description
>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|Q0JCZ4|ARFI_ORYSJ Auxin response factor 9 OS=Oryza sativa subsp. japonica GN=ARF9 PE=2 SV=1 Back     alignment and function description
>sp|Q9ZPY6|ARFK_ARATH Auxin response factor 11 OS=Arabidopsis thaliana GN=ARF11 PE=2 SV=3 Back     alignment and function description
>sp|Q9XED8|ARFI_ARATH Auxin response factor 9 OS=Arabidopsis thaliana GN=ARF9 PE=1 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query730
359386136 846 auxin-response factor [Citrus sinensis] 0.994 0.858 0.997 0.0
30027167 840 auxin response factor-like protein [Mang 0.975 0.847 0.773 0.0
225456475 862 PREDICTED: auxin response factor 2 [Viti 0.956 0.809 0.791 0.0
147791931 946 hypothetical protein VITISV_040395 [Viti 0.958 0.739 0.789 0.0
224122162 854 predicted protein [Populus trichocarpa] 0.949 0.811 0.766 0.0
356513463 858 PREDICTED: auxin response factor 2-like 0.972 0.827 0.716 0.0
255540071 844 Auxin response factor, putative [Ricinus 0.941 0.813 0.741 0.0
224136320 852 predicted protein [Populus trichocarpa] 0.946 0.811 0.760 0.0
356516493 843 PREDICTED: auxin response factor 2-like 0.963 0.833 0.727 0.0
356508865 843 PREDICTED: auxin response factor 2-like 0.930 0.805 0.757 0.0
>gi|359386136|gb|AEV43357.1| auxin-response factor [Citrus sinensis] Back     alignment and taxonomy information
 Score = 1504 bits (3893), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 724/726 (99%), Positives = 725/726 (99%)

Query: 1   MAAAASSSEVSMKSCNETGRIPMEGQNSNSTTSGVKRVGDPEMALYTELWHACAGPLVTV 60
           MAAAASSSEVSMKSCNETGRIPMEGQNSNSTTSGVKRVGDPEMALYTELWHACAGPLVTV
Sbjct: 1   MAAAASSSEVSMKSCNETGRIPMEGQNSNSTTSGVKRVGDPEMALYTELWHACAGPLVTV 60

Query: 61  PREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQ 120
           PREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQ
Sbjct: 61  PREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQ 120

Query: 121 VTLLPESNQDENAVEKEPPPPPPPRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPL 180
           VTLLPESNQDENAVEKEPPPPPPPRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPL
Sbjct: 121 VTLLPESNQDENAVEKEPPPPPPPRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPL 180

Query: 181 DMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRG 240
           DMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRG
Sbjct: 181 DMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRG 240

Query: 241 ENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEF 300
           ENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEF
Sbjct: 241 ENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEF 300

Query: 301 IVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKV 360
           IVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKV
Sbjct: 301 IVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKV 360

Query: 361 RWDETSTIPRPERVSLWKIEPALAPPALNSLPMPRPKRPRSNMLPSSPDSSVLTREGSSK 420
           RWDETSTIPRPERVS WKIEPALAPPALNSLPMPRPKRPRSNMLPSSPDSSVLTREGSSK
Sbjct: 361 RWDETSTIPRPERVSPWKIEPALAPPALNSLPMPRPKRPRSNMLPSSPDSSVLTREGSSK 420

Query: 421 LNVDPSSATGFSRVLQGQEFSTLRGNFAERESNESDTAEKSVVWPPSLDDEKIDVVSASR 480
           LNVDPSSATGFSRVLQGQEFSTLRGNFAERESNESDTAEKSVVWPPSLDDEKIDVVSASR
Sbjct: 421 LNVDPSSATGFSRVLQGQEFSTLRGNFAERESNESDTAEKSVVWPPSLDDEKIDVVSASR 480

Query: 481 RYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVAR 540
           RYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVAR
Sbjct: 481 RYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVAR 540

Query: 541 PWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLM 600
           PWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLM
Sbjct: 541 PWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLM 600

Query: 601 PPLPPSNFENSAHSRELMPKSAMVQDQEAGKSKDCKLFGIPLFSNHVMPEPVVSHRNTMN 660
           PPLPPSNFENSAHSRELMPKSAMVQDQEAGKSKDCKLFGIPLFSNHVMPEPVVSHRNTMN
Sbjct: 601 PPLPPSNFENSAHSRELMPKSAMVQDQEAGKSKDCKLFGIPLFSNHVMPEPVVSHRNTMN 660

Query: 661 EPAGNLDQQFRAFESDQKSDHSKSSKLADDNQVFNEHEKPSQPSQTHTKDVRSKTQCGST 720
           EPAGNLDQQFRAFESDQKS+HSKSSKLADDNQVFNEHEKPSQPSQTHTKDVRSKTQCGST
Sbjct: 661 EPAGNLDQQFRAFESDQKSEHSKSSKLADDNQVFNEHEKPSQPSQTHTKDVRSKTQCGST 720

Query: 721 RSCTKV 726
           RSCTKV
Sbjct: 721 RSCTKV 726

Source: Citrus sinensis

Species: Citrus sinensis

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|30027167|gb|AAP06759.1| auxin response factor-like protein [Mangifera indica] Back     alignment and taxonomy information
>gi|225456475|ref|XP_002284543.1| PREDICTED: auxin response factor 2 [Vitis vinifera] gi|297734502|emb|CBI15749.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|147791931|emb|CAN67897.1| hypothetical protein VITISV_040395 [Vitis vinifera] Back     alignment and taxonomy information
>gi|224122162|ref|XP_002318767.1| predicted protein [Populus trichocarpa] gi|222859440|gb|EEE96987.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356513463|ref|XP_003525433.1| PREDICTED: auxin response factor 2-like [Glycine max] Back     alignment and taxonomy information
>gi|255540071|ref|XP_002511100.1| Auxin response factor, putative [Ricinus communis] gi|223550215|gb|EEF51702.1| Auxin response factor, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|224136320|ref|XP_002322300.1| predicted protein [Populus trichocarpa] gi|222869296|gb|EEF06427.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356516493|ref|XP_003526928.1| PREDICTED: auxin response factor 2-like [Glycine max] Back     alignment and taxonomy information
>gi|356508865|ref|XP_003523174.1| PREDICTED: auxin response factor 2-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 ?
Query730
TAIR|locus:2174013 859 ARF2 "auxin response factor 2" 0.943 0.802 0.655 8.9e-244
TAIR|locus:2025991665 ARF1 "auxin response factor 1" 0.594 0.652 0.601 4e-138
TAIR|locus:2138096638 ARF9 "auxin response factor 9" 0.557 0.637 0.564 1.3e-126
TAIR|locus:2076765602 ARF18 "auxin response factor 1 0.553 0.671 0.565 7.5e-120
TAIR|locus:2039124622 ARF11 "auxin response factor 1 0.527 0.618 0.585 2.5e-119
TAIR|locus:2175098788 ARF4 "auxin response factor 4" 0.572 0.530 0.477 5.7e-111
TAIR|locus:2014731605 ARF14 "auxin response factor 1 0.509 0.614 0.497 6.4e-106
TAIR|locus:2036288598 ARF22 "auxin response factor 2 0.469 0.573 0.519 1.8e-101
TAIR|locus:2057609608 ETT "ETTIN" [Arabidopsis thali 0.521 0.626 0.481 3.4e-101
TAIR|locus:2026145593 ARF12 "auxin response factor 1 0.509 0.627 0.489 7.5e-101
TAIR|locus:2174013 ARF2 "auxin response factor 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 2349 (831.9 bits), Expect = 8.9e-244, P = 8.9e-244
 Identities = 470/717 (65%), Positives = 539/717 (75%)

Query:    24 EGQNSNSTTSGV-KRVGDPEMALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEAST 82
             EGQ SNST S   +R  DPE ALY ELWHACAGPLVTVPR+ +RV+YFPQGHIEQVEAST
Sbjct:    36 EGQKSNSTRSAAAERALDPEAALYRELWHACAGPLVTVPRQDDRVFYFPQGHIEQVEAST 95

Query:    83 NQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEXXXXX 142
             NQ A+QQMP+YDLPSK+LCRVINV LKAE DTDEV+AQ+TLLPE+NQDENA+EKE     
Sbjct:    96 NQAAEQQMPLYDLPSKLLCRVINVDLKAEADTDEVYAQITLLPEANQDENAIEKEAPLPP 155

Query:   143 XXRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWR 202
               RF VHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQEL AKDLH NEWR
Sbjct:   156 PPRFQVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELVAKDLHANEWR 215

Query:   203 FRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSS 262
             FRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSS
Sbjct:   216 FRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSS 275

Query:   263 VISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFK 322
             VISSHSMHLGVLATAWHA+STGTMFTVYYKPRTSPSEFIVP+DQYMES+KNNYSIGMRFK
Sbjct:   276 VISSHSMHLGVLATAWHAISTGTMFTVYYKPRTSPSEFIVPFDQYMESVKNNYSIGMRFK 335

Query:   323 MRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEXX 382
             MRFEGEEAPEQRFTGTIVGIE++DP RW  SKWR LKVRWDETS+IPRP+RVS WK+E  
Sbjct:   336 MRFEGEEAPEQRFTGTIVGIEESDPTRWPKSKWRSLKVRWDETSSIPRPDRVSPWKVEPA 395

Query:   383 XXXXXXXXXXXXRPKRPRSNMLPSSPDSSVLTREGSSKLNVDPSSATGFSRVLQGQEFST 442
                         RPKRPRSN+ PSSPDSS+LTREG++K N+DP  A+G SRVLQGQE+ST
Sbjct:   396 LAPPALSPVPMPRPKRPRSNIAPSSPDSSMLTREGTTKANMDPLPASGLSRVLQGQEYST 455

Query:   443 LRGNFAERESNESDTAEKSVVWPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLS 502
             LR    E  S E D  E SVVW  S DD+K+DVVS SRRYGSENW+   RHEP YTDLLS
Sbjct:   456 LRTKHTE--SVECDAPENSVVWQSSADDDKVDVVSGSRRYGSENWMSSARHEPTYTDLLS 513

Query:   503 GFGANADPSHGFSSPFAD-----AVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESN 557
             GFG N DPSHG   PF D     ++P ++ + D EGKF+ +A  W ++ SG SLK+ ES 
Sbjct:   514 GFGTNIDPSHGQRIPFYDHSSSPSMPAKRILSDSEGKFDYLANQWQMIHSGLSLKLHES- 572

Query:   558 AKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLMPPLPPSNFEN------S 611
              KVP    D + Q R NV+Y    +YP+LNG   E++ GNW + P   + +E        
Sbjct:   573 PKVPA-ATDASLQGRCNVKYS---EYPVLNGLSTENAGGNWPIRPRALNYYEEVVNAQAQ 628

Query:   612 AHSRELMPKSAMVQDQEAGKSKD--CKLFGIPLFSNHVMPEPVVSHRNTMNEPAGNLDQQ 669
             A +RE + K      +E  KS++  C+LFGIPL +N    +  +S RN +N+ AG    Q
Sbjct:   629 AQAREQVTKQPFTIQEETAKSREGNCRLFGIPLTNNMNGTDSTMSQRNNLNDAAGLT--Q 686

Query:   670 FRAFEXXXXXXXXXXXXLADDNQVFNEHEKPSQPSQTHTKDVRSKTQCGSTRSCTKV 726
               + +              +D++   E  +P Q +  H KD ++KT   S+RSCTKV
Sbjct:   687 IASPKVQDLSDQSKGSKSTNDHR---EQGRPFQTNNPHPKDAQTKTN--SSRSCTKV 738
GO:0003677 "DNA binding" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IDA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA
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
GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IMP;TAS
GO:0009911 "positive regulation of flower development" evidence=IMP
GO:0010047 "fruit dehiscence" evidence=IMP
GO:0010150 "leaf senescence" evidence=IMP
GO:0010227 "floral organ abscission" evidence=IMP
GO:0008285 "negative regulation of cell proliferation" evidence=IMP
GO:0048481 "ovule development" evidence=IMP
GO:0005515 "protein binding" evidence=IPI
GO:0009737 "response to abscisic acid stimulus" evidence=IMP
GO:0043565 "sequence-specific DNA binding" evidence=IDA
GO:0042744 "hydrogen peroxide catabolic process" evidence=RCA
TAIR|locus:2025991 ARF1 "auxin response factor 1" [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
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:2175098 ARF4 "auxin response factor 4" [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:2036288 ARF22 "auxin response factor 22" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2057609 ETT "ETTIN" [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

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) ?
Q94JM3ARFB_ARATHNo assigned EC number0.68470.94380.8020yesno
Q5JK20ARFD_ORYSJNo assigned EC number0.55900.91360.8254yesno

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 ?
Query730
pfam0650783 pfam06507, Auxin_resp, Auxin response factor 4e-44
pfam0236297 pfam02362, B3, B3 DNA binding domain 6e-28
smart0101996 smart01019, B3, B3 DNA binding domain 7e-25
cd1001798 cd10017, B3_DNA, Plant-specific B3-DNA binding dom 3e-20
>gnl|CDD|191545 pfam06507, Auxin_resp, Auxin response factor Back     alignment and domain information 
 Score =  152 bits (387), Expect = 4e-44
 Identities = 48/83 (57%), Positives = 65/83 (78%)

Query: 277 AWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFT 336
           A HA STG+ F V+Y PR S SEF+VPY +Y++++ N +S+GMRFKMRFE E++ E+RF+
Sbjct: 1   AAHAASTGSPFHVFYNPRASTSEFVVPYAKYLKAMNNPFSVGMRFKMRFETEDSSERRFS 60

Query: 337 GTIVGIEDADPQRWRDSKWRCLK 359
           GTI G+ D DP RW +SKWR L+
Sbjct: 61  GTISGVSDLDPIRWPNSKWRSLQ 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

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 730
PF0650783 Auxin_resp: Auxin response factor; InterPro: IPR01 100.0
PF02362100 B3: B3 DNA binding domain; InterPro: IPR003340 Two 99.7
KOG06441113 consensus Uncharacterized conserved protein, conta 99.54
PF09217156 EcoRII-N: Restriction endonuclease EcoRII, N-termi 98.19
PF03754114 DUF313: Domain of unknown function (DUF313) ; Inte 97.59
>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=1.4e-35  Score=259.70  Aligned_cols=83  Identities=55%  Similarity=1.044  Sum_probs=81.7

Q ss_pred             HHHHHHcCCeEEEEEecCCCCCceeEehhHHHHhhccCcccccEEEEEeeCCCCCCceeeEEEEEeecCCCCCCCCCCcc
Q 004792          277 AWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWR  356 (730)
Q Consensus       277 A~~aa~tg~~F~V~Y~PRas~sEFVVp~~ky~~Al~~~ws~GmRFKM~fEteDss~~r~~GTI~gv~d~DP~rWP~S~WR  356 (730)
                      |+|||++|++|+|+||||++++|||||++||++||+++|++||||||+||+||+++++|+|||+||+++||.|||+|+||
T Consensus         1 A~~aa~~~~~F~V~Y~PRa~~sEFVV~~~k~~~al~~~~~~GmRfkM~fE~eds~~~~~~GtI~~v~~~dp~~w~~S~WR   80 (83)
T PF06507_consen    1 AAHAAATGSPFEVFYYPRASPSEFVVPASKYDKALNHPWSVGMRFKMRFETEDSSERRWQGTIVGVSDLDPIRWPGSKWR   80 (83)
T ss_pred             ChhHhhcCCeEEEEECCCCCCcceEEEHHHHHHHhcCCCCCCcEEEEEeccCCCccceeeeEEeEeeccCCCCCCCCCcc
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eee
Q 004792          357 CLK  359 (730)
Q Consensus       357 ~L~  359 (730)
                      |||
T Consensus        81 ~Lq   83 (83)
T PF06507_consen   81 MLQ   83 (83)
T ss_pred             cCc
Confidence            997

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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query730
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 = 52.4 bits (124), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 31/100 (31%), Positives = 49/100 (49%), Gaps = 2/100 (2%)
Query: 151 FCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQ 210
           F K +T SD        + + HA++  P    +       L  +D++G  WRFR+ +   
Sbjct: 14  FEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNS 73
Query: 211 PRRHLLQSGWSVFVSSKRLVAGDAFIFLR--GENGELRVG 248
            + ++L  GWS FV  K L AGD   F R  G++ +L +G
Sbjct: 74  SQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIG 113

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query730
1wid_A130 DNA-binding protein RAV1; DNA-binding domain, stru 6e-42
>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 =  147 bits (373), Expect = 6e-42
 Identities = 33/128 (25%), Positives = 54/128 (42%)

Query: 139 PPPPPPRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHG 198
                 R     F K +T SD        + + HA++  P    +       L  +D++G
Sbjct: 2   SSGSSGRSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNG 61

Query: 199 NEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGN 258
             WRFR+ +    + ++L  GWS FV  K L AGD   F R    + ++ +    R   +
Sbjct: 62  KVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSD 121

Query: 259 VPSSVISS 266
           + +S  SS
Sbjct: 122 LDASGPSS 129

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query730
1wid_A130 DNA-binding protein RAV1; DNA-binding domain, stru 99.96
4i1k_A146 B3 domain-containing transcription factor VRN1; B3 99.71
1yel_A104 AT1G16640; CESG, protein structure initiative, str 99.51
1na6_A404 Ecorii, restriction endonuclease ecorii; site-spec 95.02
>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=230.66  Aligned_cols=113  Identities=27%  Similarity=0.434  Sum_probs=103.7

Q ss_pred             CCCceeEEEEecccccCCCCCceEEcccchhccCCCCCCCCCCCccEEEEEeCCCCeEEEEEEEeCCCCceeeccCchhh
Q 004792          144 PRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVF  223 (730)
Q Consensus       144 ~~~~~~~F~K~LT~SDV~~~GrfsVPk~~Ae~~FPpLD~~~~~p~q~L~~kDl~G~~W~FR~iyRg~prrhlLTtGWs~F  223 (730)
                      .++...+|+|+||+|||+++++|+||+++|+.|||.++..+..++++|.++|.+|++|+|||+||+++++|+|++||+.|
T Consensus         7 ~~~~~~~F~K~Lt~SDv~~~~rL~iPk~~a~~~lP~~~~~~~~~~~~l~l~D~~Gk~W~fr~~~~~~~~~~~Lt~GW~~F   86 (130)
T 1wid_A            7 GRSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRF   86 (130)
T ss_dssp             -CCCEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEETTTTEEEEESSHHHH
T ss_pred             CCCCcceEEEEEehHHcCCCCEEEeCHHHHHhhCCccccccCCCcEEEEEEeCCCCEEEEEEEEECCCCceEEcCChHHH
Confidence            45567899999999999999999999999999999999766667899999999999999999999999999999999999


Q ss_pred             ccccCCCCCCEEEEEEcCC--CcEEEEEEeecccC
Q 004792          224 VSSKRLVAGDAFIFLRGEN--GELRVGVRRAMRQQ  256 (730)
Q Consensus       224 Vr~K~L~aGD~VVF~R~en--GeL~VGIRRa~r~~  256 (730)
                      |++|+|++||+|+|++.++  +.|+|+|||+.+..
T Consensus        87 V~~~~L~~GD~~~F~~~~~~~~~l~I~~rr~~~~~  121 (130)
T 1wid_A           87 VKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSD  121 (130)
T ss_dssp             HHHTTCCTTCEEEEEECCSSSCCEEEEEECCCSCS
T ss_pred             HHHcCCCCCCEEEEEEecCCCcEEEEEEEECCCCC
Confidence            9999999999999999864  57999999988654
>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 730
d1wida_117 b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cre 4e-34
d1na6a1175 b.142.1.1 (A:4-178) Restriction endonuclease EcoRI 7e-22
d1yela1102 b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabid 4e-11
>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 =  123 bits (311), Expect = 4e-34
 Identities = 31/106 (29%), Positives = 50/106 (47%), Gaps = 2/106 (1%)

Query: 149 HSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFR 208
             F K +T SD        + + HA++  P    +       L  +D++G  WRFR+ + 
Sbjct: 5   ALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYW 64

Query: 209 GQPRRHLLQSGWSVFVSSKRLVAGDAFIFLR--GENGELRVGVRRA 252
              + ++L  GWS FV  K L AGD   F R  G++ +L +G +  
Sbjct: 65  NSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSR 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 ?
Query730
d1wida_117 DNA-binding protein RAV1 {Thale cress (Arabidopsis 99.94
d1na6a1175 Restriction endonuclease EcoRII, N-terminal domain 99.8
d1yela1102 At1g16640 {Thale cress (Arabidopsis thaliana) [Tax 99.43
>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=6.7e-27  Score=209.49  Aligned_cols=108  Identities=28%  Similarity=0.457  Sum_probs=101.2

Q ss_pred             ceeEEEEecccccCCCCCceEEcccchhccCCCCCCCCCCCccEEEEEeCCCCeEEEEEEEeCCCCceeeccCchhhccc
Q 004792          147 HVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSS  226 (730)
Q Consensus       147 ~~~~F~K~LT~SDV~~~GrfsVPk~~Ae~~FPpLD~~~~~p~q~L~~kDl~G~~W~FR~iyRg~prrhlLTtGWs~FVr~  226 (730)
                      ...+|.|+||+|||+++|||+||+.++++|||+++.....++++|.+.|.+|++|.|+|+||++.++|+|++||..||++
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            35799999999999999999999999999999999888788999999999999999999999888899999999999999


Q ss_pred             cCCCCCCEEEEEEc--CCCcEEEEEEeecc
Q 004792          227 KRLVAGDAFIFLRG--ENGELRVGVRRAMR  254 (730)
Q Consensus       227 K~L~aGD~VVF~R~--enGeL~VGIRRa~r  254 (730)
                      ++|++||+|+|++.  ++++|+|++||+..
T Consensus        83 ~~Lk~GD~~~F~~~~~~~~~~~i~~r~~~~  112 (117)
T d1wida_          83 KNLRAGDVVSFSRSNGQDQQLYIGWKSRSG  112 (117)
T ss_dssp             TTCCTTCEEEEEECCSSSCCEEEEEECCCS
T ss_pred             cCCCCCCEEEEEEEeCCCCEEEEEEEECCC
Confidence            99999999999997  56799999998754
>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