Citrus Sinensis ID: 005618

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-------69
MALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEPPPPPPPRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEPALAPPALNSLPMPRPKRPRSNMLPSSPDSSVLTREGSSKLNVDPSSATGFSRVLQGQEFSTLRGNFAERESNESDTAEKSVVWPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLMPPLPPSNFENSAHSRELMPKSAMVQDQEAGKSKDCKLFGIPLFSNHVMPEPVVSHRNTMNEPAGNLDQQFRAFESDQKSDHSKSSKLADDNQVFNEHEKPSQPSQTHTKDVRSKTQCGSTRSCTKVPLPH
ccccHHHHHHcccccccccccccEEEEcccccHHHHHccccHHHcccccccccccccEEEEEEcccccccccccEEEEEEEccccccccccccccccccccccccccEEEEEEccccccccccccccccccccccccccccccccccEEEEEEccccEEEEEEEEcccccEEEEccccccHHcccccccccEEEEEEcccccEEEEEEEEEccccccccccccccccccHHHHHHccccccccccEEEcccccccccccccHHHHHHHHHcccccccEEEEEEEcccccccEEEEEEEEEEcccccccccccccEEEEEEccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccc
ccHHHHHHHHHcccccEccccccEEEEcccccHHHHHHcccccHccccccccccccEEEEEEEEEEEccccccEEEEEEEEcccccccccccccccccccccccccccHEEEEccccccccccccHHHHHHHHHcccccccccccHHHHHHHHHccccEEEEEEEccccccEEEccccEEEEcccEEEcccEEEEEEcccccEEEEEEEccccccccccccEcccccHHHHHHHHHHHHHcccEEEEEEccccccccEEEEHHHHHHHHccccEEEEEEEEEEcccccccEcccEEEEEccccccccccccccEEEEEEccccccccccccccccEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
MALYTELwhacagplvtvpregervyyfpqghieqveastnqvadqqmpvydlpskILCRVINVqlkaepdtdEVFAQVTllpesnqdenavekeppppppprfhvhsfcktltasdtsthggFSVLRrhadeclppldmsrqpptqelaakdlhgnewrfrhifrgqprrhllqsgWSVFvsskrlvagdafiflrgengelRVGVRRAMrqqgnvpssvisshsMHLGVLATAWHAVSTGTMftvyykprtspsefivpyDQYMESIKNNYSIGMrfkmrfegeeapeqrftgtivgiedadpqrwrdskwrclkvrwdetstiprpervslwkiepalappalnslpmprpkrprsnmlpsspdssvltregssklnvdpssatgfsrvlqgqEFSTLRGnfaeresnesdtaeksvvwppslddekidVVSASrrygsenwvppgrhepvytdllsgfganadpshgfsspfadavpvrksvldqegkfnlvarpwslmpsgpslkmpesnakvpvqggdvnyqvrgnvryggfgdypmlngnrvehshgnwlmpplppsnfensahsrelmpksamvqdqeagkskdcklfgiplfsnhvmpepvvshrntmnepagnldQQFRAfesdqksdhsksskladdnqvfnehekpsqpsqthtkdvrsktqcgstrsctkvplph
malytelwhacagplvtvprEGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEPPPPPPPRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPeqrftgtivgiedadpqrwrdskwrclkvrwdetstiprpervslwkiepalappalnslpmprpkrprsnmlpsspdssvltregssklnvdpssatgfsrvlqgqeFSTLRGNfaeresnesdtaeksvvwppslddekiDVVSASRrygsenwvppgrHEPVYTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLMPPLPPSNFENSAHSRELMPKSAMVQDQEAGKSKDCKLFGIPLFSNHVMPEPVVSHRNTMNEPAGNLDQQFRAFESDQKSDHSKSSKLADDNQVFNehekpsqpsqthtkdvrsktqcgstrsctkvplph
MALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEpppppppRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEpalappalnslpmpRPKRPRSNMLPSSPDSSVLTREGSSKLNVDPSSATGFSRVLQGQEFSTLRGNFAERESNESDTAEKSVVWPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLMPPLPPSNFENSAHSRELMPKSAMVQDQEAGKSKDCKLFGIPLFSNHVMPEPVVSHRNTMNEPAGNLDQQFRAFEsdqksdhsksskLADDNQVFNEHEKPSQPSQTHTKDVRSKTQCGSTRSCTKVPLPH
**LYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTL**************************SFCKTLT*********FSVL*************************DLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRA**********VISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEG****EQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIE*********************************************************************************************************NWV****HEPVYTDLLSGFG**********************VLDQEGKFNLVARPW*********************GGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNW************************************CKLFGIPLFSNHV***********************************************************************************
*ALYTELWHACAGPLVTVPREGERVYYFPQGHIEQV***********MPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPE***********************SFCKTLTASDTSTHGGFSVLRRHADECLPPL***********AAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEPAL****************************************************************************************************************************************************************************************************************************************************************I***********************************************************************************TKVP***
MALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPES**************PPPRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEPALAPPALNSLPMPRP******************************SATGFSRVLQGQEFSTLRGNF**************VVWPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLMPPLPPSNFENSAHSRELMPK***********SKDCKLFGIPLFSNHVMPEPVVSHRNTMNEPAGNLDQQFRAF**************ADDNQVFNE**********************************
MALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPES******************FHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSV*SSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEPALAPPALNSLPMPRPK**************************************************************************************************VYTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKV**QGGDVN***RGNVRYGGFGD****NGNRV*****************************************KDCKLFGIPLFS**************************************************************************************
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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MALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRVINVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEPPPPPPPRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEPALAPPALNSLPMPRPKRPRSNMLPSSPDSSVLTREGSSKLNVDPSSATGFSRVLQGQEFSTLRGNFAERESNESDTAEKSVVWPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFADAVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGDYPMLNGNRVEHSHGNWLMPPLPPSNFENSAHSRELMPKSAMVQDQEAGKSKDCKLFGIPLFSNHVMPEPVVSHRNTMNEPAGNLDQQFRAFESDQKSDHSKSSKLADDNQVFNEHEKPSQPSQTHTKDVRSKTQCGSTRSCTKVPLPH
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 ?
Query688 2.2.26 [Sep-21-2011]
Q94JM3 859 Auxin response factor 2 O yes no 0.972 0.778 0.688 0.0
Q5JK20 808 Auxin response factor 4 O yes no 0.963 0.820 0.560 0.0
A2ZET6 853 Auxin response factor 23 N/A no 0.975 0.786 0.566 0.0
Q2QQX6 841 Auxin response factor 24 no no 0.968 0.791 0.553 0.0
Q2R3F5 853 Auxin response factor 23 no no 0.975 0.786 0.566 0.0
Q8L7G0665 Auxin response factor 1 O no no 0.526 0.544 0.701 1e-150
Q6YVY0678 Auxin response factor 7 O no no 0.568 0.576 0.644 1e-149
Q0JCZ4673 Auxin response factor 9 O no no 0.526 0.537 0.680 1e-144
Q9ZPY6622 Auxin response factor 11 no no 0.521 0.577 0.631 1e-132
Q9XED8638 Auxin response factor 9 O no no 0.513 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 =  950 bits (2455), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 479/696 (68%), Positives = 550/696 (79%), Gaps = 27/696 (3%)

Query: 2   ALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRV 61
           ALY ELWHACAGPLVTVPR+ +RV+YFPQGHIEQVEASTNQ A+QQMP+YDLPSK+LCRV
Sbjct: 57  ALYRELWHACAGPLVTVPRQDDRVFYFPQGHIEQVEASTNQAAEQQMPLYDLPSKLLCRV 116

Query: 62  INVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEPPPPPPPRFHVHSFCKTLTASDTSTH 121
           INV LKAE DTDEV+AQ+TLLPE+NQDENA+EKE P PPPPRF VHSFCKTLTASDTSTH
Sbjct: 117 INVDLKAEADTDEVYAQITLLPEANQDENAIEKEAPLPPPPRFQVHSFCKTLTASDTSTH 176

Query: 122 GGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVF 181
           GGFSVLRRHADECLPPLDMSRQPPTQEL AKDLH NEWRFRHIFRGQPRRHLLQSGWSVF
Sbjct: 177 GGFSVLRRHADECLPPLDMSRQPPTQELVAKDLHANEWRFRHIFRGQPRRHLLQSGWSVF 236

Query: 182 VSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVST 241
           VSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHA+ST
Sbjct: 237 VSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAIST 296

Query: 242 GTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIE 301
           GTMFTVYYKPRTSPSEFIVP+DQYMES+KNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIE
Sbjct: 297 GTMFTVYYKPRTSPSEFIVPFDQYMESVKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIE 356

Query: 302 DADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEPALAPPALNSLPMPRPKRPRSNM 361
           ++DP RW  SKWR LKVRWDETS+IPRP+RVS WK+EPALAPPAL+ +PMPRPKRPRSN+
Sbjct: 357 ESDPTRWPKSKWRSLKVRWDETSSIPRPDRVSPWKVEPALAPPALSPVPMPRPKRPRSNI 416

Query: 362 LPSSPDSSVLTREGSSKLNVDPSSATGFSRVLQGQEFSTLRGNFAERESNESDTAEKSVV 421
            PSSPDSS+LTREG++K N+DP  A+G SRVLQGQE+STLR      ES E D  E SVV
Sbjct: 417 APSSPDSSMLTREGTTKANMDPLPASGLSRVLQGQEYSTLRTKHT--ESVECDAPENSVV 474

Query: 422 WPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFAD--- 478
           W  S DD+K+DVVS SRRYGSENW+   RHEP YTDLLSGFG N DPSHG   PF D   
Sbjct: 475 WQSSADDDKVDVVSGSRRYGSENWMSSARHEPTYTDLLSGFGTNIDPSHGQRIPFYDHSS 534

Query: 479 --AVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYG 536
             ++P ++ + D EGKF+ +A  W ++ SG SLK+ ES  KVP    D + Q R NV+Y 
Sbjct: 535 SPSMPAKRILSDSEGKFDYLANQWQMIHSGLSLKLHES-PKVPA-ATDASLQGRCNVKY- 591

Query: 537 GFGDYPMLNGNRVEHSHGNWLMPPLPPSNFENSAH------SRELMPKSAMVQDQEAGKS 590
              +YP+LNG   E++ GNW + P   + +E   +      +RE + K      +E  KS
Sbjct: 592 --SEYPVLNGLSTENAGGNWPIRPRALNYYEEVVNAQAQAQAREQVTKQPFTIQEETAKS 649

Query: 591 KD--CKLFGIPLFSNHVMPEPVVSHRNTMNEPAGNLDQQFRAFESDQKSDHSKSSKLADD 648
           ++  C+LFGIPL +N    +  +S RN +N+ AG    Q  + +    SD SK SK  +D
Sbjct: 650 REGNCRLFGIPLTNNMNGTDSTMSQRNNLNDAAGLT--QIASPKVQDLSDQSKGSKSTND 707

Query: 649 NQVFNEHEKPSQPSQTHTKDVRSKTQCGSTRSCTKV 684
           ++   E  +P Q +  H KD ++KT   S+RSCTKV
Sbjct: 708 HR---EQGRPFQTNNPHPKDAQTKTN--SSRSCTKV 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 ?
Query688
359386136 846 auxin-response factor [Citrus sinensis] 0.994 0.808 0.997 0.0
30027167 840 auxin response factor-like protein [Mang 0.991 0.811 0.797 0.0
225456475 862 PREDICTED: auxin response factor 2 [Viti 0.988 0.788 0.802 0.0
147791931 946 hypothetical protein VITISV_040395 [Viti 0.991 0.720 0.800 0.0
224122162 854 predicted protein [Populus trichocarpa] 0.979 0.789 0.776 0.0
356513463 858 PREDICTED: auxin response factor 2-like 0.982 0.787 0.755 0.0
255540071 844 Auxin response factor, putative [Ricinus 0.968 0.789 0.755 0.0
224136320 852 predicted protein [Populus trichocarpa] 0.973 0.786 0.769 0.0
356516493 843 PREDICTED: auxin response factor 2-like 0.984 0.803 0.752 0.0
356508865 843 PREDICTED: auxin response factor 2-like 0.981 0.800 0.758 0.0
>gi|359386136|gb|AEV43357.1| auxin-response factor [Citrus sinensis] Back     alignment and taxonomy information
 Score = 1419 bits (3673), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 682/684 (99%), Positives = 683/684 (99%)

Query: 1   MALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCR 60
           MALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCR
Sbjct: 43  MALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCR 102

Query: 61  VINVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEPPPPPPPRFHVHSFCKTLTASDTST 120
           VINVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEPPPPPPPRFHVHSFCKTLTASDTST
Sbjct: 103 VINVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEPPPPPPPRFHVHSFCKTLTASDTST 162

Query: 121 HGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSV 180
           HGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSV
Sbjct: 163 HGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSV 222

Query: 181 FVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVS 240
           FVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVS
Sbjct: 223 FVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVS 282

Query: 241 TGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGI 300
           TGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGI
Sbjct: 283 TGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGI 342

Query: 301 EDADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEPALAPPALNSLPMPRPKRPRSN 360
           EDADPQRWRDSKWRCLKVRWDETSTIPRPERVS WKIEPALAPPALNSLPMPRPKRPRSN
Sbjct: 343 EDADPQRWRDSKWRCLKVRWDETSTIPRPERVSPWKIEPALAPPALNSLPMPRPKRPRSN 402

Query: 361 MLPSSPDSSVLTREGSSKLNVDPSSATGFSRVLQGQEFSTLRGNFAERESNESDTAEKSV 420
           MLPSSPDSSVLTREGSSKLNVDPSSATGFSRVLQGQEFSTLRGNFAERESNESDTAEKSV
Sbjct: 403 MLPSSPDSSVLTREGSSKLNVDPSSATGFSRVLQGQEFSTLRGNFAERESNESDTAEKSV 462

Query: 421 VWPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFADAV 480
           VWPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFADAV
Sbjct: 463 VWPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFADAV 522

Query: 481 PVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGD 540
           PVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGD
Sbjct: 523 PVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYGGFGD 582

Query: 541 YPMLNGNRVEHSHGNWLMPPLPPSNFENSAHSRELMPKSAMVQDQEAGKSKDCKLFGIPL 600
           YPMLNGNRVEHSHGNWLMPPLPPSNFENSAHSRELMPKSAMVQDQEAGKSKDCKLFGIPL
Sbjct: 583 YPMLNGNRVEHSHGNWLMPPLPPSNFENSAHSRELMPKSAMVQDQEAGKSKDCKLFGIPL 642

Query: 601 FSNHVMPEPVVSHRNTMNEPAGNLDQQFRAFESDQKSDHSKSSKLADDNQVFNEHEKPSQ 660
           FSNHVMPEPVVSHRNTMNEPAGNLDQQFRAFESDQKS+HSKSSKLADDNQVFNEHEKPSQ
Sbjct: 643 FSNHVMPEPVVSHRNTMNEPAGNLDQQFRAFESDQKSEHSKSSKLADDNQVFNEHEKPSQ 702

Query: 661 PSQTHTKDVRSKTQCGSTRSCTKV 684
           PSQTHTKDVRSKTQCGSTRSCTKV
Sbjct: 703 PSQTHTKDVRSKTQCGSTRSCTKV 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 ?
Query688
TAIR|locus:2174013 859 ARF2 "auxin response factor 2" 0.972 0.778 0.658 1.1e-238
TAIR|locus:2025991665 ARF1 "auxin response factor 1" 0.630 0.652 0.601 4e-138
TAIR|locus:2138096638 ARF9 "auxin response factor 9" 0.591 0.637 0.564 1.3e-126
TAIR|locus:2076765602 ARF18 "auxin response factor 1 0.587 0.671 0.565 7.5e-120
TAIR|locus:2039124622 ARF11 "auxin response factor 1 0.549 0.607 0.593 5.2e-119
TAIR|locus:2175098788 ARF4 "auxin response factor 4" 0.568 0.496 0.497 6.4e-110
TAIR|locus:2014731605 ARF14 "auxin response factor 1 0.517 0.588 0.513 1.7e-105
TAIR|locus:2057609608 ETT "ETTIN" [Arabidopsis thali 0.553 0.626 0.481 3.4e-101
TAIR|locus:2036288598 ARF22 "auxin response factor 2 0.475 0.546 0.538 4.6e-101
TAIR|locus:2204237 935 ARF6 "auxin response factor 6" 0.526 0.387 0.535 1e-100
TAIR|locus:2174013 ARF2 "auxin response factor 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 2301 (815.1 bits), Expect = 1.1e-238, P = 1.1e-238
 Identities = 458/696 (65%), Positives = 526/696 (75%)

Query:     2 ALYTELWHACAGPLVTVPREGERVYYFPQGHIEQVEASTNQVADQQMPVYDLPSKILCRV 61
             ALY ELWHACAGPLVTVPR+ +RV+YFPQGHIEQVEASTNQ A+QQMP+YDLPSK+LCRV
Sbjct:    57 ALYRELWHACAGPLVTVPRQDDRVFYFPQGHIEQVEASTNQAAEQQMPLYDLPSKLLCRV 116

Query:    62 INVQLKAEPDTDEVFAQVTLLPESNQDENAVEKEXXXXXXXRFHVHSFCKTLTASDTSTH 121
             INV LKAE DTDEV+AQ+TLLPE+NQDENA+EKE       RF VHSFCKTLTASDTSTH
Sbjct:   117 INVDLKAEADTDEVYAQITLLPEANQDENAIEKEAPLPPPPRFQVHSFCKTLTASDTSTH 176

Query:   122 GGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVF 181
             GGFSVLRRHADECLPPLDMSRQPPTQEL AKDLH NEWRFRHIFRGQPRRHLLQSGWSVF
Sbjct:   177 GGFSVLRRHADECLPPLDMSRQPPTQELVAKDLHANEWRFRHIFRGQPRRHLLQSGWSVF 236

Query:   182 VSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAVST 241
             VSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHA+ST
Sbjct:   237 VSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGNVPSSVISSHSMHLGVLATAWHAIST 296

Query:   242 GTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIE 301
             GTMFTVYYKPRTSPSEFIVP+DQYMES+KNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIE
Sbjct:   297 GTMFTVYYKPRTSPSEFIVPFDQYMESVKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIE 356

Query:   302 DADPQRWRDSKWRCLKVRWDETSTIPRPERVSLWKIEXXXXXXXXXXXXXXRPKRPRSNM 361
             ++DP RW  SKWR LKVRWDETS+IPRP+RVS WK+E              RPKRPRSN+
Sbjct:   357 ESDPTRWPKSKWRSLKVRWDETSSIPRPDRVSPWKVEPALAPPALSPVPMPRPKRPRSNI 416

Query:   362 LPSSPDSSVLTREGSSKLNVDPSSATGFSRVLQGQEFSTLRGNFAERESNESDTAEKSVV 421
              PSSPDSS+LTREG++K N+DP  A+G SRVLQGQE+STLR    E  S E D  E SVV
Sbjct:   417 APSSPDSSMLTREGTTKANMDPLPASGLSRVLQGQEYSTLRTKHTE--SVECDAPENSVV 474

Query:   422 WPPSLDDEKIDVVSASRRYGSENWVPPGRHEPVYTDLLSGFGANADPSHGFSSPFAD--- 478
             W  S DD+K+DVVS SRRYGSENW+   RHEP YTDLLSGFG N DPSHG   PF D   
Sbjct:   475 WQSSADDDKVDVVSGSRRYGSENWMSSARHEPTYTDLLSGFGTNIDPSHGQRIPFYDHSS 534

Query:   479 --AVPVRKSVLDQEGKFNLVARPWSLMPSGPSLKMPESNAKVPVQGGDVNYQVRGNVRYG 536
               ++P ++ + D EGKF+ +A  W ++ SG SLK+ ES  KVP    D + Q R NV+Y 
Sbjct:   535 SPSMPAKRILSDSEGKFDYLANQWQMIHSGLSLKLHES-PKVPA-ATDASLQGRCNVKYS 592

Query:   537 GFGDYPMLNGNRVEHSHGNWLMPPLPPSNFEN------SAHSRELMPKSAMVQDQEAGKS 590
                +YP+LNG   E++ GNW + P   + +E        A +RE + K      +E  KS
Sbjct:   593 ---EYPVLNGLSTENAGGNWPIRPRALNYYEEVVNAQAQAQAREQVTKQPFTIQEETAKS 649

Query:   591 KD--CKLFGIPLFSNHVMPEPVVSHRNTMNEPAGNLDQQFRAFEXXXXXXXXXXXXLADD 648
             ++  C+LFGIPL +N    +  +S RN +N+ AG    Q  + +              +D
Sbjct:   650 REGNCRLFGIPLTNNMNGTDSTMSQRNNLNDAAGLT--QIASPKVQDLSDQSKGSKSTND 707

Query:   649 NQVFNEHEKPSQPSQTHTKDVRSKTQCGSTRSCTKV 684
             ++   E  +P Q +  H KD ++KT   S+RSCTKV
Sbjct:   708 HR---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:2057609 ETT "ETTIN" [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:2204237 ARF6 "auxin response factor 6" [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 number0.68820.97230.7788yesno
Q5JK20ARFD_ORYSJNo assigned EC number0.56030.96360.8205yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00018031001
SubName- Full=Chromosome chr17 scaffold_16, whole genome shotgun sequence; (862 aa)
(Vitis vinifera)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query688
pfam0650783 pfam06507, Auxin_resp, Auxin response factor 3e-44
pfam0236297 pfam02362, B3, B3 DNA binding domain 7e-28
smart0101996 smart01019, B3, B3 DNA binding domain 1e-24
cd1001798 cd10017, B3_DNA, Plant-specific B3-DNA binding dom 5e-20
>gnl|CDD|191545 pfam06507, Auxin_resp, Auxin response factor Back     alignment and domain information 
 Score =  152 bits (387), Expect = 3e-44
 Identities = 48/83 (57%), Positives = 65/83 (78%)

Query: 235 AWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFT 294
           A HA STG+ F V+Y PR S SEF+VPY +Y++++ N +S+GMRFKMRFE E++ E+RF+
Sbjct: 1   AAHAASTGSPFHVFYNPRASTSEFVVPYAKYLKAMNNPFSVGMRFKMRFETEDSSERRFS 60

Query: 295 GTIVGIEDADPQRWRDSKWRCLK 317
           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 688
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 99.51
PF09217156 EcoRII-N: Restriction endonuclease EcoRII, N-termi 97.98
PF03754114 DUF313: Domain of unknown function (DUF313) ; Inte 97.54
>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=5.7e-36  Score=260.60  Aligned_cols=83  Identities=55%  Similarity=1.044  Sum_probs=81.7

Q ss_pred             HHHHHHcCCeEEEEEecCCCCCceeEehhhHHHhhcCCcccccEEEEEeeCCCCCCceeeEEEEEeecCCCCCCCCCCcc
Q 005618          235 AWHAVSTGTMFTVYYKPRTSPSEFIVPYDQYMESIKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWRDSKWR  314 (688)
Q Consensus       235 a~~aa~~g~~F~V~Y~PRas~sEFVVp~~ky~~S~~~~ws~GmRFKM~fEtED~~~~r~~GTI~gv~~~Dp~rWP~S~WR  314 (688)
                      |+|||++|++|+|+||||++++||||+++||++||+++|++||||||+||+||+++++|+|||+||+++||.|||+|+||
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 005618          315 CLK  317 (688)
Q Consensus       315 ~L~  317 (688)
                      |||
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 ?
Query688
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: 109 FCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQ 168
           F K +T SD        + + HA++  P    +       L  +D++G  WRFR+ +   
Sbjct: 14  FEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNS 73
Query: 169 PRRHLLQSGWSVFVSSKRLVAGDAFIFLR--GENGELRVG 206
            + ++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 ?
Query688
1wid_A130 DNA-binding protein RAV1; DNA-binding domain, stru 4e-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 = 4e-42
 Identities = 33/128 (25%), Positives = 54/128 (42%)

Query: 97  PPPPPPRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHG 156
                 R     F K +T SD        + + HA++  P    +       L  +D++G
Sbjct: 2   SSGSSGRSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNG 61

Query: 157 NEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLRGENGELRVGVRRAMRQQGN 216
             WRFR+ +    + ++L  GWS FV  K L AGD   F R    + ++ +    R   +
Sbjct: 62  KVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSD 121

Query: 217 VPSSVISS 224
           + +S  SS
Sbjct: 122 LDASGPSS 129

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query688
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 99.5
1na6_A404 Ecorii, restriction endonuclease ecorii; site-spec 93.73
>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=9.9e-29  Score=228.28  Aligned_cols=113  Identities=27%  Similarity=0.434  Sum_probs=103.6

Q ss_pred             CCCceeeEEEecccccCCCCCceEEcccchhccCCCCCCCCCCCccEEEEEeCCCCeEEEEEEEeCCCCceeeccCceee
Q 005618          102 PRFHVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVF  181 (688)
Q Consensus       102 ~~~~~~~F~K~LT~SDV~~~grfsVPk~~Ae~~FPpLd~~~~~p~q~L~~kDl~G~~W~FR~~yRg~prrhlLTtGWs~F  181 (688)
                      .++..++|+|+||+|||+++++|+||+++|+.|||.++..+..++++|.++|.+|++|+|||+||+++++|+|++||+.|
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             eccCCCCCCCEEEEEEcCC--CcEEEEEEEecccC
Q 005618          182 VSSKRLVAGDAFIFLRGEN--GELRVGVRRAMRQQ  214 (688)
Q Consensus       182 Vk~KkL~aGD~VvF~R~~n--GeL~VGIRRa~r~~  214 (688)
                      |++|+|++||+|+|++.++  +.|+|+|||+.+..
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 688
d1wida_117 b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cre 5e-34
d1na6a1175 b.142.1.1 (A:4-178) Restriction endonuclease EcoRI 8e-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 (310), Expect = 5e-34
 Identities = 31/106 (29%), Positives = 50/106 (47%), Gaps = 2/106 (1%)

Query: 107 HSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFR 166
             F K +T SD        + + HA++  P    +       L  +D++G  WRFR+ + 
Sbjct: 5   ALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYW 64

Query: 167 GQPRRHLLQSGWSVFVSSKRLVAGDAFIFLR--GENGELRVGVRRA 210
              + ++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 ?
Query688
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 99.41
>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=7.1e-27  Score=208.47  Aligned_cols=108  Identities=28%  Similarity=0.457  Sum_probs=101.2

Q ss_pred             ceeeEEEecccccCCCCCceEEcccchhccCCCCCCCCCCCccEEEEEeCCCCeEEEEEEEeCCCCceeeccCceeeecc
Q 005618          105 HVHSFCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSS  184 (688)
Q Consensus       105 ~~~~F~K~LT~SDV~~~grfsVPk~~Ae~~FPpLd~~~~~p~q~L~~kDl~G~~W~FR~~yRg~prrhlLTtGWs~FVk~  184 (688)
                      ...+|.|+||+|||++++||+||+++|++|||+++.....++++|.+.|.+|++|.|+|+||++.++|+|++||..||++
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            45799999999999999999999999999999999887788999999999999999999999888899999999999999


Q ss_pred             CCCCCCCEEEEEEc--CCCcEEEEEEEecc
Q 005618          185 KRLVAGDAFIFLRG--ENGELRVGVRRAMR  212 (688)
Q Consensus       185 KkL~aGD~VvF~R~--~nGeL~VGIRRa~r  212 (688)
                      ++|++||+|+|++.  ++++|+|++||+..
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  56789999998764
>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