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 Bradi2g59480.1.p
Common NameBRADI_2g59480, LOC100834181
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: 815aa    MW: 90695.5 Da    PI: 6.2665
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi2g59480.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.16.8e-23127228199
                       EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                       f+k+lt sd++++g +++ +++a+e+       +++++  ++l+ +d++g  W++++i+r++++r++l++GW+ Fv++++L +gD ++F   +
  Bradi2g59480.1.p 127 FCKTLTASDTSTHGGFSVLRRHADEClppldmtQSPPT--QELVAKDLHGMDWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--R 215
                       99*****************************7555544..58************************************************..4 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                        +++el+v+v+r+
  Bradi2g59480.1.p 216 GESGELRVGVRRA 228
                       49999*****996 PP
2Auxin_resp109.24.2e-36253334183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       a+ha++tks+F+v+Y+Pr+s+seF+++++++++++k+++s+G Rf+m+fe+e+++e+r++Gt++g ++ldp  Wp+S WrsLk
  Bradi2g59480.1.p 253 AWHAINTKSMFTVYYKPRTSPSEFIIPYDQYMESVKNNYSIGVRFRMRFEGEEAPEQRFTGTIIGSENLDP-LWPESSWRSLK 334
                       89*********************************************************************.9********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.14E-40118256IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.5E-39121242IPR015300DNA-binding pseudobarrel domain
CDDcd100171.08E-19125227No hitNo description
PROSITE profilePS5086311.702127229IPR003340B3 DNA binding domain
SMARTSM010199.5E-22127229IPR003340B3 DNA binding domain
PfamPF023629.8E-21127228IPR003340B3 DNA binding domain
PfamPF065078.4E-33253334IPR010525Auxin response factor
PfamPF023094.0E-12675778IPR033389AUX/IAA domain
SuperFamilySSF542771.44E-11687770No hitNo description
PROSITE profilePS5174523.755693786IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009737Biological Processresponse to abscisic acid
GO:0009911Biological Processpositive regulation of flower development
GO:0010047Biological Processfruit dehiscence
GO:0010150Biological Processleaf senescence
GO:0010227Biological Processfloral organ abscission
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0005634Cellular Componentnucleus
GO:0005515Molecular Functionprotein binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 815 aa     Download sequence    Send to blast
MPPVAMAPPP QGPSAGDPLF NELWHACAGP LVTVPRVGDL VFYFPQGHIE QVEASMNQVA  60
DNQMRLYDLP SKLLCSVINV ELKAEADTDE VYAQVMLIPE NDQNEMAVEK SSSKAATTLA  120
KPAVRSFCKT LTASDTSTHG GFSVLRRHAD ECLPPLDMTQ SPPTQELVAK DLHGMDWRFR  180
HIFRGQPRRH LLQSGWSVFV SSKRLVAGDA FIFLRGESGE LRVGVRRAMR QLSNVPSSVI  240
SSHSMHLGVL ATAWHAINTK SMFTVYYKPR TSPSEFIIPY DQYMESVKNN YSIGVRFRMR  300
FEGEEAPEQR FTGTIIGSEN LDPLWPESSW RSLKVRWDEP STIPRPDRVS PWKIEPASSP  360
PVNPLPLSRV KRPRPNVPPA SPESSALTKE GATKVDVDSA QAQRNQTSMV LQGQEPMTLR  420
SNNLTDSNDS DATVQKPMMW SPSPNIGKSR PLTFQQRPSM DNWMQLGRRE TDYKDASSGA  480
QSFGDSPGFF VQTYDEAPNH LASFKNQFQD QGPARHFSEP YFFMHQQPNL TVDSSTKMHP  540
ETNELHFWNG QNTVYGHSGD QSQGFRFEEH PSNWSSQQFS RVEQPRVIRP HASIAPVDLE  600
KTREGSGFKI FGFKVDTASA PTNHLSSPMA ATHEPALQTQ PSASLNQLQH AQTDCFPEVS  660
VSTGGTNENE KSIQQAPQSS KDVQSKSHGA STRSCTKVHK QGVALGRSVD LSKFSDYDEL  720
KAELDKMFEF DGELMSSNKN WQIVYTDNED DMMLVGDDPW GEFCSIVRKI CIYTKEEVQK  780
MNSKLSAPRK EDGAAPCDGA NENAALPAPG NLDN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1671235912357Auxin response factor 1
4ldw_A1e-1671235912357Auxin response factor 1
4ldw_B1e-1671235912357Auxin response factor 1
4ldx_A1e-1671235912357Auxin response factor 1
4ldx_B1e-1671235912357Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1370374KRPRP
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
MP00574DAPTransfer from AT5G62000Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapBradi2g59480.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003564986.10.0auxin response factor 4
SwissprotQ5JK200.0ARFD_ORYSJ; Auxin response factor 4
TrEMBLA0A0Q3JFT40.0A0A0Q3JFT4_BRADI; Auxin response factor
STRINGBRADI2G59480.10.0(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP117836111
Representative plantOGRP5501582
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
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. Song X, et al.
    Rice RNA-dependent RNA polymerase 6 acts in small RNA biogenesis and spikelet development.
    Plant J., 2012. 71(3): p. 378-89
    [PMID:22443269]
  3. Kishimoto N, et al.
    Identification of the duplicated segments in rice chromosomes 1 and 5 by linkage analysis of cDNA markers of known functions.
    Theor. Appl. Genet., 1994. 88(6-7): p. 722-6
    [PMID:24186168]