Citrus Sinensis ID: 008088

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-------58
MPSQQPYSPAEPRAVDPRIWRACAGSSVQIPSVNSRVYYFPQGHVEQSCPSITLSVTKPFIPCLITHVEFLADPVTDQVFAKVVLNPITALEPSRNFLEQQQEQQPRGLSIGNVEENNVVAFAKILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHIYRGTPRRHLLTTGWSKFVNRKKLIAGDSVVFMRDSRGKMYIGLRRSVRYGNNGDSAGARWREQTGMKAEAVAVAVERAVLGLPFEVVYYPRAGWADFIVRAEVVDSAMRVFWTAGMRVKMVVETEDSSRMTWIQGTVTAASMPDRGPWCGSPWGMLEVTWDEPEILQNAKRVSPWQIEFVSPTQPLHTAFPPAKRLKFSPNYGSMTDVEEEIFFPVNGLGNSTVGCLNPSLLNYNTFPAGMQGARQNPYSLFSLSNFISENNHQMSSDGIFGNNMVPKLRRVSTELNIGSSQSDNLSPDSHSSVHSFGTELGGNQGCNSTKVGVRSIQLFGKIIHMKQPVESGFGDVVCPDDDGSKGFSEREDVNLPLDLSLTYTELLNRFGIQGRGSEVEDEVVAEACSL
ccccccccccccccccHHHHHHcccccccccccccEEEEEcccccccccccccccccccccccEEEEcccccccccccEEEEcccccccccccccHHHHHccccccccccccccccccccEEEEEEcccccccccccEEccccHHHcccccccccccccEEEEEEEccccEEEEEEEEcccccEEEEccccHHHHcccccccccEEEEEEcccccEEEEEEEEcccccccccccccccccccccHHHHHHHHHHHHccccEEEEEccccccccEEEEHHHHHHHHccccccccEEEEEEEcccccccEEEEcEEEEEcccccccccccccccEEEEEcccccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccccHHHHcHHHHHHHHccccccccccHHEEEccccc
ccccccccccccccccHHHHHHHccccccccccccEEEEcccccHHHHccccccccccccEEEEEEEEEEEccccccEEEEEEEEccccccHcccccccccccccccccccccccccccHHHHHHccccccccccccccHHHHHHHHcccccccccccHHHHHHHHccccEEEEEEEEccccccEEEccccEEEEcccEEEcccEEEEEEcccccEEEEEEEcccccccccccccccccccccHHHHHHHHHHHHHccccEEEEEccccccccEEEEHHHHHHHHHccccccEEEEEEEcccccccEEEEEEEEEEccccccccccccccEEEEEEccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcHHHHcccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccEEEcccEEEcccccccccccccccccccccccccccccccEEEEEEcHHHHHHHHHHHcccccHHHHHHHHHccc
mpsqqpyspaepravdpriwracagssvqipsvnsrvyyfpqghveqscpsitlsvtkpfipclithvefladpvtdQVFAKVVlnpitalepsrnFLEQQQeqqprglsignveeNNVVAFAKIltpsdanngggfsvprfcadsifpplnyqvdppvqnisvtdiHGAVWEFrhiyrgtprrhllttgwskfvnrkkliagdsvvfmrdsrgkmyiGLRRSvrygnngdsagARWREQTGMKAEAVAVAVERAVLglpfevvyypragwaDFIVRAEVVDSAMRVFWTAGMRVKMVVETEDSSRMTWIQGTVTaasmpdrgpwcgspwgmlevtwdepeilqnakrvspwqiefvsptqplhtafppakrlkfspnygsmtdveeeiffpvnglgnstvgclnpsllnyntfpagmqgarqnpyslfslsnfisennhqmssdgifgnnmvpkLRRVSTelnigssqsdnlspdshssvhsfgtelggnqgcnstkVGVRSIQLFGKIIhmkqpvesgfgdvvcpdddgskgfseredvnlpldlSLTYTELLNRFgiqgrgsevEDEVVAEACSL
mpsqqpyspaepravDPRIWRACAGSSVQIPSVNSRVYYFPQGHVEQSCPSITLSVTKPFIPCLITHVEFLADPVTDQVFAKVVLNPITALEPSRNFLEQQQEQQPRGLSIGNVEENNVVAFAKILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHiyrgtprrhllttgwskfvnrkkliagdsvvfmrdsrgkmyiglrrsvrygnngdsaGARWREQTGMKAEAVAVAVERAVLGLPFEVVYYPRAGWADFIVRAEVVDSAMRVFWTAGMRVKMVVetedssrmtWIQGTVtaasmpdrgpWCGSPWGMLEVTWDEPEILQNAKRVSPWQIEFVSptqplhtafppakrlkFSPNYGSMTDVEEEIFFPVNGLGNSTVGCLNPSLLNYNTFPAGMQGARQNPYSLFSLSNFISENNHQMSSDGIFGNNMVPKLRRVSTELNIGSsqsdnlspdsHSSVHSFGTELGGNQGCNSTKVGVRSIQLFGKIIHMkqpvesgfgdVVCPDDDGSKGFSEREDVNLPLDLSLTYTELLNRFGIqgrgsevedEVVAEACSL
MPSQQPYSPAEPRAVDPRIWRACAGSSVQIPSVNSRVYYFPQGHVEQSCPSITLSVTKPFIPCLITHVEFLADPVTDQVFAKVVLNPITALEPSRNFLEQQQEQQPRGLSIGNVEENNVVAFAKILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHIYRGTPRRHLLTTGWSKFVNRKKLIAGDSVVFMRDSRGKMYIGLRRSVRYGNNGDSAGARWREQTGMKaeavavaveravLGLPFEVVYYPRAGWADFIVRAEVVDSAMRVFWTAGMRVKMVVETEDSSRMTWIQGTVTAASMPDRGPWCGSPWGMLEVTWDEPEILQNAKRVSPWQIEFVSPTQPLHTAFPPAKRLKFSPNYGSMTDVEEEIFFPVNGLGNSTVGCLNPSLLNYNTFPAGMQGARQNPYSLFSLSNFISENNHQMSSDGIFGNNMVPKLRRVSTELNIGSSQSDNLSPDSHSSVHSFGTELGGNQGCNSTKVGVRSIQLFGKIIHMKQPVESGFGDVVCPDDDGSKGFSEREDVNLPLDLSLTYTELLNRFGIQGRGSEVEDEVVAEACSL
****************PRIWRACAGSSVQIPSVNSRVYYFPQGHVEQSCPSITLSVTKPFIPCLITHVEFLADPVTDQVFAKVVLNPITAL************************ENNVVAFAKILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHIYRGTPRRHLLTTGWSKFVNRKKLIAGDSVVFMRDSRGKMYIGLRRSVRYGNNGDSAGARWREQTGMKAEAVAVAVERAVLGLPFEVVYYPRAGWADFIVRAEVVDSAMRVFWTAGMRVKMVVETEDSSRMTWIQGTVTAASMPDRGPWCGSPWGMLEVTWDEPEILQNAKRVSPWQIEFVSP*****************************IFFPVNGLGNSTVGCLNPSLLNYNTFPAGMQGARQNPYSLFSLSNFI*********************************************************GCNSTKVGVRSIQLFGKIIHMKQPVESGFGDVVCP************DVNLPLDLSLTYTELLNRFGIQG****************
*****************RIWRACAGSSVQIPSVNSRVYYFPQGH*****************PCLITHVEFLADPVTDQVFAKVVLNPITALE***************************VAFAKILTPSDANNGGGFSVPRFCADSI***************SVTDIHGAVWEFRHIYRGTPRRHLLTTGWSKFVNRKKLIAGDSVVFMRDSRGKMYIGLRR****************************AVERAVLGLPFEVVYYPRAGWADFIVRAEVVDSAMRVFWTAGMRVKMVVETEDSSRMTWIQGTVTAASMPDRGPWCGSPWGMLEVTWDEPEILQNAKRVSPWQIEFVS*****************************************************************************************************************************************************************************************PLDLSLTYTELLNRFGIQGRGSEVEDEVVAEACSL
*************AVDPRIWRACAGSSVQIPSVNSRVYYFPQGHVEQSCPSITLSVTKPFIPCLITHVEFLADPVTDQVFAKVVLNPITALEPSRNFL*********GLSIGNVEENNVVAFAKILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHIYRGTPRRHLLTTGWSKFVNRKKLIAGDSVVFMRDSRGKMYIGLRRSVRYGNNGDSAGARWREQTGMKAEAVAVAVERAVLGLPFEVVYYPRAGWADFIVRAEVVDSAMRVFWTAGMRVKMVVETEDSSRMTWIQGTVTAASMPDRGPWCGSPWGMLEVTWDEPEILQNAKRVSPWQIEFVSPTQPLHTAFPPAKRLKFSPNYGSMTDVEEEIFFPVNGLGNSTVGCLNPSLLNYNTFPAGMQGARQNPYSLFSLSNFISENNHQMSSDGIFGNNMVPKLRRVSTELNIG*****************FGTELGGNQGCNSTKVGVRSIQLFGKIIHMKQPVESGFGDVVCPDDDGSKGFSEREDVNLPLDLSLTYTELLNRFGIQGRGSEVEDEVVAEACSL
************RAVDPRIWRACAGSSVQIPSVNSRVYYFPQGHVEQSCPSITLSVTKPFIPCLITHVEFLADPVTDQVFAKVVLNPITA****************************VVAFAKILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHIYRGTPRRHLLTTGWSKFVNRKKLIAGDSVVFMRDSRGKMYIGLRRSVRYGN*GDSA*****EQTGMKAEAVAVAVERAVLGLPFEVVYYPRAGWADFIVRAEVVDSAMRVFWTAGMRVKMVVETEDSSRMTWIQGTVTAASMPDRGPWCGSPWGMLEVTWDEPEILQNAKRVSPWQIEFVSPTQPLHTAFPPAKRLKF*PNYGSMTDVEEEIFFPVNGLGNSTVGCLNPSLLNYNTFPAGMQGARQNPYSLFSLSNFISENNHQMSSDGIFGNNMVPKLRRVSTELNIG**********************************VRSIQLFGKIIHMK*************************DVNLPLDLSLTYTELLNRFGIQGRGSEVEDEVVAEACSL
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MPSQQPYSPAEPRAVDPRIWRACAGSSVQIPSVNSRVYYFPQGHVEQSCPSITLSVTKPFIPCLITHVEFLADPVTDQVFAKVVLNPITALEPSRNFLEQQQEQQPRGLSIGNVEENNVVAFAKILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHIYRGTPRRHLLTTGWSKFVNRKKLIAGDSVVFMRDSRGKMYIGLRRSVRYGNNGDSAGARWREQTGMKAEAVAVAVERAVLGLPFEVVYYPRAGWADFIVRAEVVDSAMRVFWTAGMRVKMVVETEDSSRMTWIQGTVTAASMPDRGPWCGSPWGMLEVTWDEPEILQNAKRVSPWQIEFVSPTQPLHTAFPPAKRLKFSPNYGSMTDVEEEIFFPVNGLGNSTVGCLNPSLLNYNTFPAGMQGARQNPYSLFSLSNFISENNHQMSSDGIFGNNMVPKLRRVSTELNIGSSQSDNLSPDSHSSVHSFGTELGGNQGCNSTKVGVRSIQLFGKIIHMKQPVESGFGDVVCPDDDGSKGFSEREDVNLPLDLSLTYTELLNRFGIQGRGSEVEDEVVAEACSL
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 ?
Query578 2.2.26 [Sep-21-2011]
Q84WU6585 Auxin response factor 17 yes no 0.878 0.868 0.536 1e-158
Q653H7700 Auxin response factor 18 yes no 0.870 0.718 0.393 1e-101
Q93YR9670 Auxin response factor 16 no no 0.823 0.710 0.398 1e-101
Q9AV47698 Auxin response factor 22 no no 0.939 0.777 0.377 1e-101
Q7XKK6699 Auxin response factor 10 no no 0.856 0.708 0.397 2e-98
Q01I35699 Auxin response factor 10 N/A no 0.856 0.708 0.397 2e-98
Q9SKN5693 Auxin response factor 10 no no 0.695 0.580 0.446 1e-97
Q6K223681 Auxin response factor 8 O no no 0.756 0.641 0.424 4e-94
Q7XSS9529 Auxin response factor 13 no no 0.757 0.827 0.376 6e-67
A3B9A0 1055 Auxin response factor 16 no no 0.622 0.341 0.366 7e-62
>sp|Q84WU6|ARFQ_ARATH Auxin response factor 17 OS=Arabidopsis thaliana GN=ARF17 PE=2 SV=1 Back     alignment and function desciption
 Score =  558 bits (1439), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 303/565 (53%), Positives = 383/565 (67%), Gaps = 57/565 (10%)

Query: 13  RAVDPRIWRACAGSSVQIPSVNSRVYYFPQGHVEQSCPSI-TLSVTKPFIPCLITHVEFL 71
           R VDP IWRACAG+SVQIP ++SRVYYFPQGHVE  CP + TL  +   +PC+IT ++ L
Sbjct: 14  REVDPTIWRACAGASVQIPVLHSRVYYFPQGHVEHCCPLLSTLPSSTSPVPCIITSIQLL 73

Query: 72  ADPVTDQVFAKVVLNPITALEPSRNFLEQQQEQQPRGLS-----IGNVEENN-VVAFAKI 125
           ADPVTD+VFA ++L P+T           QQ+  P   S      G+V++NN V  FAKI
Sbjct: 74  ADPVTDEVFAHLILQPMT-----------QQQFTPTNYSRFGRFDGDVDDNNKVTTFAKI 122

Query: 126 LTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHIYRGTPRRH 185
           LTPSDANNGGGFSVPRFCADS+FP LN+Q+DPPVQ + VTDIHGAVW+FRHIYRGTPRRH
Sbjct: 123 LTPSDANNGGGFSVPRFCADSVFPLLNFQIDPPVQKLYVTDIHGAVWDFRHIYRGTPRRH 182

Query: 186 LLTTGWSKFVNRKKLIAGDSVVFMRDSRGKMYIGLRR----------------------- 222
           LLTTGWSKFVN KKLIAGDSVVFMR S  +M+IG+RR                       
Sbjct: 183 LLTTGWSKFVNSKKLIAGDSVVFMRKSADEMFIGVRRTPISSSDGGSSYYGGDEYNGYYS 242

Query: 223 --SVRYGNNGDSAGARWREQTG-MKAEAVAVAVERAVLGLPFEVVYYPRAGWADFIVRAE 279
             SV   ++G       R   G + AEAV  A+ RA  GLPFEVV+YP AGW++F+VRAE
Sbjct: 243 QSSVAKEDDGSPKKTFRRSGNGKLTAEAVTDAINRASQGLPFEVVFYPAAGWSEFVVRAE 302

Query: 280 VVDSAMRVFWTAGMRVKMVVETEDSSRMTWIQGTVTAASMPDRGPWCGSPWGMLEVTWDE 339
            V+S+M ++WT G RVKM +ETEDSSR+TW QG V+ ++  + GPW GSPW  L++TWDE
Sbjct: 303 DVESSMSMYWTPGTRVKMAMETEDSSRITWFQGIVS-STYQETGPWRGSPWKQLQITWDE 361

Query: 340 PEILQNAKRVSPWQIEFVSPTQPLHTAFPPAKRLKF-SPNYGSMTDVEEEIFFPVNGLGN 398
           PEILQN KRV+PWQ+E  +    LHT FPPAKRLK+  P  G ++  + EI +P +GL +
Sbjct: 362 PEILQNVKRVNPWQVEIAAHATQLHTPFPPAKRLKYPQPGGGFLSGDDGEILYPQSGLSS 421

Query: 399 STVGCLNPSLLNYNTFPAGMQGARQNPYSLFSLSNFISENNHQMSSDGIFGNNM---VPK 455
           +     +PS+ +Y+TFPAGMQGARQ  +  F+ + FI  N  Q+     F NN    +P 
Sbjct: 422 AAAPDPSPSMFSYSTFPAGMQGARQYDFGSFNPTGFIGGNPPQL-----FTNNFLSPLPD 476

Query: 456 LRRVSTE-LNIGSSQSDNLSPDSHSSVHSFGTELGGNQGCNSTKVGVRSIQLFGKIIHMK 514
           L +VSTE +N GS  SDNLSP+S+++  S G +L GN+G  S K  V SIQLFGKII ++
Sbjct: 477 LGKVSTEMMNFGSPPSDNLSPNSNTTNLSSGNDLVGNRGPLSKK--VNSIQLFGKIITVE 534

Query: 515 QPVESGFGDVVCPDDDGSKGFSERE 539
           +  ESG  +    ++DGSK  S+ E
Sbjct: 535 EHSESGPAESGLCEEDGSKESSDNE 559
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|Q653H7|ARFR_ORYSJ Auxin response factor 18 OS=Oryza sativa subsp. japonica GN=ARF18 PE=2 SV=1 Back     alignment and function description
>sp|Q93YR9|ARFP_ARATH Auxin response factor 16 OS=Arabidopsis thaliana GN=ARF16 PE=2 SV=1 Back     alignment and function description
>sp|Q9AV47|ARFV_ORYSJ Auxin response factor 22 OS=Oryza sativa subsp. japonica GN=ARF22 PE=2 SV=1 Back     alignment and function description
>sp|Q7XKK6|ARFJ_ORYSJ Auxin response factor 10 OS=Oryza sativa subsp. japonica GN=ARF10 PE=2 SV=3 Back     alignment and function description
>sp|Q01I35|ARFJ_ORYSI Auxin response factor 10 OS=Oryza sativa subsp. indica GN=ARF10 PE=2 SV=2 Back     alignment and function description
>sp|Q9SKN5|ARFJ_ARATH Auxin response factor 10 OS=Arabidopsis thaliana GN=ARF10 PE=2 SV=1 Back     alignment and function description
>sp|Q6K223|ARFH_ORYSJ Auxin response factor 8 OS=Oryza sativa subsp. japonica GN=ARF8 PE=2 SV=1 Back     alignment and function description
>sp|Q7XSS9|ARFM_ORYSJ Auxin response factor 13 OS=Oryza sativa subsp. japonica GN=ARF13 PE=2 SV=2 Back     alignment and function description
>sp|A3B9A0|ARFP_ORYSJ Auxin response factor 16 OS=Oryza sativa subsp. japonica GN=ARF16 PE=2 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query578
255545568603 Auxin response factor, putative [Ricinus 0.972 0.932 0.621 0.0
357461711593 Auxin response factor [Medicago truncatu 0.956 0.932 0.507 1e-161
359492813593 PREDICTED: LOW QUALITY PROTEIN: auxin re 0.968 0.944 0.543 1e-160
15810291585 auxin response factor ARF17 [Arabidopsis 0.878 0.868 0.536 1e-156
12323297596 putative auxin response factor; 79762-82 0.878 0.852 0.536 1e-156
18411720585 auxin response factor 17 [Arabidopsis th 0.878 0.868 0.536 1e-156
297839643572 hypothetical protein ARALYDRAFT_895674 [ 0.885 0.895 0.523 1e-154
356550817551 PREDICTED: auxin response factor 17-like 0.904 0.949 0.541 1e-153
147843289624 hypothetical protein VITISV_030510 [Viti 0.877 0.812 0.535 1e-149
6573757652 F28K19.6 [Arabidopsis thaliana] 0.870 0.771 0.520 1e-148
>gi|255545568|ref|XP_002513844.1| Auxin response factor, putative [Ricinus communis] gi|223546930|gb|EEF48427.1| Auxin response factor, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  724 bits (1869), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 383/616 (62%), Positives = 453/616 (73%), Gaps = 54/616 (8%)

Query: 2   PSQQPYSPAEPRAVDPRIWRACAGSSVQIPSVNSRVYYFPQGHVEQSCPSITL------- 54
           PS  P   A+ R VD RIWRACAGSSVQIP++NSRVYYFPQGH+EQS  S ++       
Sbjct: 3   PSLHP--SADLRRVDRRIWRACAGSSVQIPTINSRVYYFPQGHLEQSSNSSSIVSSCILS 60

Query: 55  --SVTKPFIPCLITHVEFLADPVTDQVFAKVVLNPITALEPSRNFLEQQQE-QQPRGLSI 111
             +++KP IPC I+ V+FLADPVTD+V+ K++L PI +  PS   LE     +Q  G   
Sbjct: 61  SIALSKPVIPCQISAVQFLADPVTDEVYTKLLLFPIDSFNPSVPVLEHSGNLEQHHGYDY 120

Query: 112 GNVEENNVVAFAKILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAV 171
            + +E+ +VAFAKILTPSDANNGGGFSVPRFCADSIFPPLNY  +PPVQ ++VTDIHG  
Sbjct: 121 DD-DEDKIVAFAKILTPSDANNGGGFSVPRFCADSIFPPLNYHAEPPVQTLTVTDIHGIT 179

Query: 172 WEFRHIYRGTPRRHLLTTGWSKFVNRKKLIAGDSVVFMRDSRGKMYIGLRRSVRYGNNGD 231
           W+FRHIYRGTPRRHLLTTGWSKFVN KKLIAGDSVVFMR+  GKM+IG+RR+VR  NNG 
Sbjct: 180 WDFRHIYRGTPRRHLLTTGWSKFVNHKKLIAGDSVVFMRNMTGKMFIGVRRAVR-PNNGG 238

Query: 232 SAGARWREQTG----------MKA---------------EAVAVAVERAVLGLPFEVVYY 266
           S  ARWREQ            MK                EAV  AVERA  G  FEVVYY
Sbjct: 239 SDCARWREQIACFGGGGGDVKMKVKEEGYSRNGRGKVSPEAVMEAVERAAQGFSFEVVYY 298

Query: 267 PRAGW-ADFIVRAEVVDSAMRVFWTAGMRVKMVVETEDSSRMTWIQGTVTAASMPDRGPW 325
           PRAGW +DF+VR +VVD A+ V W+AGMRVKM +ETEDSSRMTW QGT+ +AS+PD G W
Sbjct: 299 PRAGWYSDFVVRTDVVDGALAVCWSAGMRVKMAMETEDSSRMTWFQGTIASASLPDCGLW 358

Query: 326 CGSPWGMLEVTWDEPEILQNAKRVSPWQIEFVSPTQPLHTAFPPAKRLKFSPNYGSMTDV 385
            GSPW ML+V WDEPE+LQNAKRVSPWQ+E+VSP+ PLH AFPPAK+ +F  N G +TD 
Sbjct: 359 RGSPWRMLQVAWDEPEVLQNAKRVSPWQVEYVSPSPPLHGAFPPAKKFRFPENSGFLTDG 418

Query: 386 EEEIFFPVNGLGNSTVGCLNPSLLNYNTFPAGMQGARQNPYSLFSLSNFISENNHQMSSD 445
           E E+FFP++GL NST+G +N S LNY++FPAGMQGARQNP+S++ LSNF SE+   + SD
Sbjct: 419 EGELFFPMSGLTNSTMGNINQS-LNYHSFPAGMQGARQNPFSVYGLSNFFSEDTSHLCSD 477

Query: 446 GIFGNNMVPKLRRVSTELNIGSSQSDNLSPDSHSSVHSFGTELGGNQGCNSTKVGVRSIQ 505
            +FGN MVPKL+ VSTELNIGSS S+NLSPDS SS+HS  TEL GN GCNSTK G+ S Q
Sbjct: 478 NVFGNKMVPKLKTVSTELNIGSSPSENLSPDSQSSIHSCDTELVGNPGCNSTKAGISSFQ 537

Query: 506 LFGKIIHMKQPVESGFGDVVCPDDDGSKGFSEREDVNLPLDLSLT--YTELLNRFGIQG- 562
           LFGKIIHM QPVESGF D    +D  SK ++E    + PLDL+LT  YTELL+R  +Q  
Sbjct: 538 LFGKIIHMSQPVESGFEDAGYVEDYVSKRYNE----DNPLDLALTSSYTELLSRIDVQCQ 593

Query: 563 RGSEVEDEVVAEACSL 578
           R S V      EACSL
Sbjct: 594 RASAV------EACSL 603

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|357461711|ref|XP_003601137.1| Auxin response factor [Medicago truncatula] gi|355490185|gb|AES71388.1| Auxin response factor [Medicago truncatula] Back     alignment and taxonomy information
>gi|359492813|ref|XP_002284328.2| PREDICTED: LOW QUALITY PROTEIN: auxin response factor 17-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|15810291|gb|AAL07033.1| auxin response factor ARF17 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|12323297|gb|AAG51629.1|AC012193_11 putative auxin response factor; 79762-82020 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|18411720|ref|NP_565161.1| auxin response factor 17 [Arabidopsis thaliana] gi|46576532|sp|Q84WU6.1|ARFQ_ARATH RecName: Full=Auxin response factor 17 gi|27754249|gb|AAO22578.1| auxin response factor ARF17 [Arabidopsis thaliana] gi|332197913|gb|AEE36034.1| auxin response factor 17 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297839643|ref|XP_002887703.1| hypothetical protein ARALYDRAFT_895674 [Arabidopsis lyrata subsp. lyrata] gi|297333544|gb|EFH63962.1| hypothetical protein ARALYDRAFT_895674 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|356550817|ref|XP_003543780.1| PREDICTED: auxin response factor 17-like [Glycine max] Back     alignment and taxonomy information
>gi|147843289|emb|CAN80533.1| hypothetical protein VITISV_030510 [Vitis vinifera] Back     alignment and taxonomy information
>gi|6573757|gb|AAF17677.1|AC009243_4 F28K19.6 [Arabidopsis thaliana] 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 ?
Query578
TAIR|locus:2126460670 ARF16 "auxin response factor 1 0.392 0.338 0.489 1.7e-101
TAIR|locus:2057517 693 ARF10 "auxin response factor 1 0.378 0.316 0.528 9.7e-99
TAIR|locus:2029436585 ARF17 "auxin response factor 1 0.558 0.552 0.497 3.5e-75
TAIR|locus:2152642 811 ARF8 "auxin response factor 8" 0.600 0.427 0.362 6.9e-61
TAIR|locus:2204237 935 ARF6 "auxin response factor 6" 0.640 0.395 0.356 1.2e-60
TAIR|locus:2202205 1086 ARF19 "auxin response factor 1 0.622 0.331 0.380 1e-59
TAIR|locus:2057609608 ETT "ETTIN" [Arabidopsis thali 0.607 0.577 0.372 7.8e-58
TAIR|locus:2035454 902 MP "MONOPTEROS" [Arabidopsis t 0.721 0.462 0.339 1.9e-55
TAIR|locus:2025991665 ARF1 "auxin response factor 1" 0.596 0.518 0.364 5.5e-54
TAIR|locus:2174013 859 ARF2 "auxin response factor 2" 0.628 0.422 0.338 2.5e-53
TAIR|locus:2126460 ARF16 "auxin response factor 16" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 591 (213.1 bits), Expect = 1.7e-101, Sum P(3) = 1.7e-101
 Identities = 115/235 (48%), Positives = 153/235 (65%)

Query:     6 PYSPAEPRAVDPRIWRACAGSSVQIPSVNSRVYYFPQGHVEQS--CPSITLSVTKPFIPC 63
             P      + +DP++W ACAG  V++P +NS+V+YFPQGH E +  C         P + C
Sbjct:     7 PMKGGTEKGLDPQLWHACAGGMVRMPPMNSKVFYFPQGHAENAYDCVDFGNLPIPPMVLC 66

Query:    64 LITHVEFLADPVTDQVFAKVVLNPITALEPSRNFLEQQQEQQPRGLSIGNVEENNVVAFA 123
              +  ++++AD  +D+VFAK+ L P+   E   +  E    +   G    N E+    +FA
Sbjct:    67 RVLAIKYMADAESDEVFAKLRLIPLKDDEYVDH--EYGDGEDSNGFE-SNSEKTP--SFA 121

Query:   124 KILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHIYRGTPR 183
             K LT SDANNGGGFSVPR+CA++IFP L+Y  +PPVQ I   D+HG VW+FRHIYRGTPR
Sbjct:   122 KTLTQSDANNGGGFSVPRYCAETIFPRLDYNAEPPVQTILAKDVHGDVWKFRHIYRGTPR 181

Query:   184 RHLLTTGWSKFVNRKKLIAGDSVVFMRDSRGKMYIGLRRSVRYG-NNGDSAGARW 237
             RHLLTTGWS FVN+KKL+AGDS+VFMR   G + +G+RR+ R G  NG    A W
Sbjct:   182 RHLLTTGWSNFVNQKKLVAGDSIVFMRAENGDLCVGIRRAKRGGIGNGPEYSAGW 236
GO:0003677 "DNA binding" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IEA;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:0035198 "miRNA binding" evidence=ISS
GO:0007389 "pattern specification process" evidence=IDA
GO:0009733 "response to auxin stimulus" evidence=IEP
GO:0048829 "root cap development" evidence=IGI;IMP
GO:0051301 "cell division" evidence=IGI
TAIR|locus:2057517 ARF10 "auxin response factor 10" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2029436 ARF17 "auxin response factor 17" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2152642 ARF8 "auxin response factor 8" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2204237 ARF6 "auxin response factor 6" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2202205 ARF19 "auxin response factor 19" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2057609 ETT "ETTIN" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2035454 MP "MONOPTEROS" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus: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

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) ?
Q84WU6ARFQ_ARATHNo assigned EC number0.53620.87880.8683yesno

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 ?
Query578
pfam0236297 pfam02362, B3, B3 DNA binding domain 1e-26
pfam0650783 pfam06507, Auxin_resp, Auxin response factor 4e-26
smart0101996 smart01019, B3, B3 DNA binding domain 5e-23
cd1001798 cd10017, B3_DNA, Plant-specific B3-DNA binding dom 2e-19
cd10015109 cd10015, BfiI_C_EcoRII_N_B3, DNA binding domains o 5e-04
>gnl|CDD|216995 pfam02362, B3, B3 DNA binding domain Back     alignment and domain information 
 Score =  103 bits (258), Expect = 1e-26
 Identities = 38/101 (37%), Positives = 54/101 (53%), Gaps = 6/101 (5%)

Query: 122 FAKILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHIYRGT 181
           F K+LTPSD +  G   +P+  A+          +   Q I++ D  G  W  +  YR +
Sbjct: 1   FVKVLTPSDVSKDGRLVLPKKFAEENGL------NKKGQEITLLDPDGKSWTVKLRYRKS 54

Query: 182 PRRHLLTTGWSKFVNRKKLIAGDSVVFMRDSRGKMYIGLRR 222
            RR+LLT+GW +FV    L AGDS+VF  D  GK  +G+ R
Sbjct: 55  GRRYLLTSGWKEFVKANGLKAGDSLVFKLDGGGKFVVGIFR 95

This is a family of plant transcription factors with various roles in development, the aligned region corresponds the B3 DNA binding domain as described in this domain is found in VP1/AB13 transcription factors. Some proteins also have a second AP2 DNA binding domain pfam00847 such as RAV1. DNA binding activity was demonstrated by. Length = 97
>gnl|CDD|191545 pfam06507, Auxin_resp, Auxin response factor Back     alignment and domain information
>gnl|CDD|214977 smart01019, B3, B3 DNA binding domain Back     alignment and domain information
>gnl|CDD|197383 cd10017, B3_DNA, Plant-specific B3-DNA binding domain Back     alignment and domain information
>gnl|CDD|197381 cd10015, BfiI_C_EcoRII_N_B3, DNA binding domains of BfiI, EcoRII and plant B3 proteins Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 578
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 99.41
PF09217156 EcoRII-N: Restriction endonuclease EcoRII, N-termi 98.07
PF03754114 DUF313: Domain of unknown function (DUF313) ; Inte 97.66
PF02309215 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The A 94.51
>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=4e-35  Score=250.65  Aligned_cols=83  Identities=48%  Similarity=0.731  Sum_probs=80.7

Q ss_pred             HHHHHHcCCCEEEEEecCCCCCceEEeHHHHHhhhccCcccccEEEEeeeccCCCceeeEEEEEEecCCCCCCCCCCCCC
Q 008088          251 AVERAVLGLPFEVVYYPRAGWADFIVRAEVVDSAMRVFWTAGMRVKMVVETEDSSRMTWIQGTVTAASMPDRGPWCGSPW  330 (578)
Q Consensus       251 A~~~aa~g~~F~V~Y~Pra~~~EFvV~~~~y~~a~~~~w~~GmRFkM~fE~EDssr~~w~~GTI~~v~~~dp~rWp~S~W  330 (578)
                      |+|+|+++++|+|+||||++++||||++++|++||+++|++||||||+||+||+++++ |+|||++|++.||.+||+|+|
T Consensus         1 A~~aa~~~~~F~V~Y~PRa~~sEFVV~~~k~~~al~~~~~~GmRfkM~fE~eds~~~~-~~GtI~~v~~~dp~~w~~S~W   79 (83)
T PF06507_consen    1 AAHAAATGSPFEVFYYPRASPSEFVVPASKYDKALNHPWSVGMRFKMRFETEDSSERR-WQGTIVGVSDLDPIRWPGSKW   79 (83)
T ss_pred             ChhHhhcCCeEEEEECCCCCCcceEEEHHHHHHHhcCCCCCCcEEEEEeccCCCccce-eeeEEeEeeccCCCCCCCCCc
Confidence            6899999999999999999999999999999999999999999999999999999887 499999999999999999999


Q ss_pred             Ccee
Q 008088          331 GMLE  334 (578)
Q Consensus       331 R~L~  334 (578)
                      ||||
T Consensus        80 R~Lq   83 (83)
T PF06507_consen   80 RMLQ   83 (83)
T ss_pred             ccCc
Confidence            9997

The plant hormone auxin (indole-3-acetic acid) can regulate the gene expression of several families, including Aux/IAA, GH3 and SAUR families. Two related families of proteins, Aux/IAA proteins (IPR003311 from INTERPRO) and the auxin response factors (ARF), are key regulators of auxin-modulated gene expression []. There are multiple ARF proteins, some of which activate, while others repress transcription. ARF proteins bind to auxin-responsive cis-acting promoter elements (AuxREs) using an N-terminal DNA-binding domain. It is thought that Aux/IAA proteins activate transcription by modifying ARF activity through the C-terminal protein-protein interaction domains (IPR011525 from INTERPRO) found in both Aux/IAA and ARF proteins. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0009725 response to hormone stimulus, 0005634 nucleus
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species Back     alignment and domain information
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only] Back     alignment and domain information
>PF09217 EcoRII-N: Restriction endonuclease EcoRII, N-terminal; InterPro: IPR023372 There are four classes of restriction endonucleases: types I, II,III and IV Back     alignment and domain information
>PF03754 DUF313: Domain of unknown function (DUF313) ; InterPro: IPR005508 This is a family of proteins from Arabidopsis thaliana (Mouse-ear cress) with uncharacterised function Back     alignment and domain information
>PF02309 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The Aux/IAA family of genes are key regulators of auxin-modified gene expression [] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query578
1wid_A130 Solution Structure Of The B3 Dna-Binding Domain Of 6e-12
>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1 Length = 130 Back     alignment and structure 
Iteration: 1

 Score = 69.3 bits (168), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 40/115 (34%), Positives = 63/115 (54%), Gaps = 4/115 (3%)
Query: 122 FAKILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHIYRGT 181
           F K +TPSD        +P+  A+  FP  +  V      ++  D++G VW FR+ Y  +
Sbjct: 14  FEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNS 73
Query: 182 PRRHLLTTGWSKFVNRKKLIAGDSVVFMRDS--RGKMYIGLRRSVRYGNNGDSAG 234
            + ++LT GWS+FV  K L AGD V F R +    ++YIG +   R G++ D++G
Sbjct: 74  SQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKS--RSGSDLDASG 126

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query578
1wid_A130 DNA-binding protein RAV1; DNA-binding domain, stru 5e-36
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-04
1yel_A104 AT1G16640; CESG, protein structure initiative, str 1e-04
>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 =  130 bits (327), Expect = 5e-36
 Identities = 37/113 (32%), Positives = 59/113 (52%)

Query: 122 FAKILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHIYRGT 181
           F K +TPSD        +P+  A+  FP  +  V      ++  D++G VW FR+ Y  +
Sbjct: 14  FEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNS 73

Query: 182 PRRHLLTTGWSKFVNRKKLIAGDSVVFMRDSRGKMYIGLRRSVRYGNNGDSAG 234
            + ++LT GWS+FV  K L AGD V F R +     + +    R G++ D++G
Sbjct: 74  SQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSDLDASG 126
>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
>1yel_A AT1G16640; CESG, protein structure initiative, structural genomics, center for eukaryotic structural genomics, unknown function; NMR {Arabidopsis thaliana} SCOP: b.142.1.2 Length = 104 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query578
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 99.54
1na6_A404 Ecorii, restriction endonuclease ecorii; site-spec 93.18
>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=2.8e-29  Score=228.53  Aligned_cols=113  Identities=32%  Similarity=0.561  Sum_probs=104.4

Q ss_pred             CCcceeEEEEecccccCCCCCceeEccccccccCCCCCCCCCCCceEEEEEeCCCCeEEEEEEEcCCCcceEeccchhhh
Q 008088          115 EENNVVAFAKILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHIYRGTPRRHLLTTGWSKF  194 (578)
Q Consensus       115 ~~~~~~~F~K~LT~SDv~~~grfsVPk~~Ae~~FP~Ld~~~~~p~q~L~~~D~~G~~W~Fr~~yrg~prr~lLTtGWs~F  194 (578)
                      ..+...+|.|+||+|||+++++|+||+++|+.|||.++..+..+.++|.++|.+|++|+|||+||+++++|+|++||+.|
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            44578899999999999999999999999999999999876678899999999999999999999999999999999999


Q ss_pred             hhccCCcCCCEEEEEEcCC--CcEEEEEEEccCCC
Q 008088          195 VNRKKLIAGDSVVFMRDSR--GKMYIGLRRSVRYG  227 (578)
Q Consensus       195 V~~K~L~aGD~VvF~R~~~--G~l~VgIRRa~r~~  227 (578)
                      |++|+|++||+|+|++.++  +.|+|++||+.+..
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            9999999999999999764  57999999998765
>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 578
d1wida_117 b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cre 4e-33
d1na6a1175 b.142.1.1 (A:4-178) Restriction endonuclease EcoRI 6e-20
d1yela1102 b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabid 7e-13
>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 =  120 bits (302), Expect = 4e-33
 Identities = 39/113 (34%), Positives = 60/113 (53%), Gaps = 4/113 (3%)

Query: 122 FAKILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHIYRGT 181
           F K +TPSD        +P+  A+  FP  +  V      ++  D++G VW FR+ Y  +
Sbjct: 7   FEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNS 66

Query: 182 PRRHLLTTGWSKFVNRKKLIAGDSVVFMRD--SRGKMYIGLRRSVRYGNNGDS 232
            + ++LT GWS+FV  K L AGD V F R      ++YIG +   R G++ D+
Sbjct: 67  SQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKS--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 ?
Query578
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 99.46
>d1wida_ b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
class: All beta proteins
fold: DNA-binding pseudobarrel domain
superfamily: DNA-binding pseudobarrel domain
family: B3 DNA binding domain
domain: DNA-binding protein RAV1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.94  E-value=3.8e-27  Score=207.37  Aligned_cols=109  Identities=33%  Similarity=0.579  Sum_probs=102.1

Q ss_pred             ceeEEEEecccccCCCCCceeEccccccccCCCCCCCCCCCceEEEEEeCCCCeEEEEEEEcCCCcceEeccchhhhhhc
Q 008088          118 NVVAFAKILTPSDANNGGGFSVPRFCADSIFPPLNYQVDPPVQNISVTDIHGAVWEFRHIYRGTPRRHLLTTGWSKFVNR  197 (578)
Q Consensus       118 ~~~~F~K~LT~SDv~~~grfsVPk~~Ae~~FP~Ld~~~~~p~q~L~~~D~~G~~W~Fr~~yrg~prr~lLTtGWs~FV~~  197 (578)
                      ...+|.|+||+|||++++||+||+++|+.|||+++.....+++.|.+.|.+|++|+|+|+||++.++|+|++||..||++
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            35799999999999999999999999999999999988888999999999999999999999888899999999999999


Q ss_pred             cCCcCCCEEEEEEc--CCCcEEEEEEEccCC
Q 008088          198 KKLIAGDSVVFMRD--SRGKMYIGLRRSVRY  226 (578)
Q Consensus       198 K~L~aGD~VvF~R~--~~G~l~VgIRRa~r~  226 (578)
                      ++|++||+|+|+|.  ++++++|++||+...
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  467999999998743
>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