PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Bradi4g01730.1.p
Organism
Brachypodium distachyon
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family ARF
Protein Properties Length: 887aa    MW: 98252.9 Da    PI: 6.0432
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi4g01730.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.62.4e-23122222198
                       EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                       f+k+lt sd++++g +++p++ ae+       +++++++ +l+ +d++ ++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F   ++
  Bradi4g01730.1.p 122 FCKTLTASDTSTHGGFSVPRRSAEKVfppldfSLQPPCQ-ELIARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVIFI--WN 211
                       99******************************9999996.9************************************************..67 PP

                       SEE..EEEEE- CS
                B3  88 sefelvvkvfr 98 
                       ++ +l+++++ 
  Bradi4g01730.1.p 212 DNNQLLLGIRH 222
                       67777888875 PP
2Auxin_resp116.52.3e-38248331183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       aahaa+t+s F+++YnPr+s+seFv++++k++k+++ ++vsvGmRf+m fete+ss rr++Gtv+++sdld+vrWpnS+Wrs+k
  Bradi4g01730.1.p 248 AAHAAATNSRFTIFYNPRSSPSEFVIPLAKYVKSVYhTRVSVGMRFRMLFETEESSVRRYMGTVTAISDLDSVRWPNSHWRSVK 331
                       79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.09E-47109251IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.4E-40113237IPR015300DNA-binding pseudobarrel domain
CDDcd100176.62E-22121214No hitNo description
PfamPF023622.3E-21122222IPR003340B3 DNA binding domain
SMARTSM010192.9E-23122224IPR003340B3 DNA binding domain
PROSITE profilePS5086312.111122224IPR003340B3 DNA binding domain
PfamPF065074.0E-33248331IPR010525Auxin response factor
PfamPF023092.7E-8750838IPR033389AUX/IAA domain
SuperFamilySSF542771.67E-6752828No hitNo description
PROSITE profilePS5174523.91753837IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 887 aa     Download sequence    Send to blast
MTQTLPENDG EQRCLNSELW HACAGPLVSL PVVGSRVIYF PQGHSEQVAA STNKEVDGQI  60
PNYPNLPPQL ICQLHNVTMH ADVETDEVYA QMTLQPLSPE EQKEPFLPIE LGAASKQPTN  120
YFCKTLTASD TSTHGGFSVP RRSAEKVFPP LDFSLQPPCQ ELIARDLHDN EWKFRHIFRG  180
QPKRHLLTTG WSVFVSAKRL VAGDSVIFIW NDNNQLLLGI RHANRPQTIM PSSVLSSDSM  240
HIGLLAAAAH AAATNSRFTI FYNPRSSPSE FVIPLAKYVK SVYHTRVSVG MRFRMLFETE  300
ESSVRRYMGT VTAISDLDSV RWPNSHWRSV KVGWDESTAG EKQPRVSLWE IEPLTTFPMY  360
PTAFPLRLKR PWASGLPSMH GMFNGVKNDD FARYSSLMWL GNGDRGTQSS NFQGLGVSPW  420
LQPRIESPLL GLKPDTYQQM AAAALEEIRA GDPLIQSSAL LQFQQTQNLN GGLDSPYANH  480
VLQQMQYQSS LPTVQEGYNQ YSGNSGFLQS HLQQLQLHNP QQLQKQQELP SLQQQRHQIL  540
QQQSHQEMQQ QLSSSCHRVT DVDSSMPGSE SASQSHSPFY QQNLLEGNND PSLHMHNSFR  600
DFSSQEASNL VSLPQSSQLM APEGWPSKRL AVEPLAHVES RSARPKLENG NHQNSISHFA  660
GTLASESARD CSSVQACGSN IDNQLLSSSL HDGMSSVRGG SGNGTVSMAI PLFRYDGEDL  720
PPANSLATSS CLGESATFNS LDNICGVNPS QGGTFVKVYK SGSPGRSLDI TKFSSYYELR  780
SELEHLFGLE GQLEDPVRSG WQLVFVDREN DILLVGDDPW QEFVNSVWCI KILSPQDVHQ  840
MVRNGEGLLS ASGARMMQGN VCDDYSASHD LQNLTGNIAS VPPLDY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-159335238388Auxin response factor 5
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00033PBMTransfer from AT5G37020Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapBradi4g01730.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3688220.0AK368822.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv2080I14.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010237021.10.0auxin response factor 25
SwissprotQ2QM840.0ARFY_ORYSJ; Auxin response factor 25
TrEMBLA0A0Q3IHY20.0A0A0Q3IHY2_BRADI; Auxin response factor
STRINGBRADI4G01730.10.0(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP127122934
Representative plantOGRP8561456
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.10.0auxin response factor 6
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Gao S, et al.
    CYTOKININ OXIDASE/DEHYDROGENASE4 Integrates Cytokinin and Auxin Signaling to Control Rice Crown Root Formation.
    Plant Physiol., 2014. 165(3): p. 1035-1046
    [PMID:24808099]