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 Brast01G036800.1.p
Organism
Brachypodium stacei
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: 814aa    MW: 90604.4 Da    PI: 6.2399
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Brast01G036800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.16.8e-23126227199
                         EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                         f+k+lt sd++++g +++ +++a+e+       +++++  ++l+ +d++g  W++++i+r++++r++l++GW+ Fv++++L +gD ++F  
  Brast01G036800.1.p 126 FCKTLTASDTSTHGGFSVLRRHADEClppldmtQSPPT--QELVAKDLHGMDWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL- 213
                         99*****************************7555544..58************************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          + +++el+v+v+r+
  Brast01G036800.1.p 214 -RGESGELRVGVRRA 227
                         .449999*****996 PP
2Auxin_resp109.24.2e-36252333183
          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
  Brast01G036800.1.p 252 AWHAINTKSMFTVYYKPRTSPSEFIIPYDQYMESVKNNYSIGVRFRMRFEGEEAPEQRFTGTIIGSENLDP-LWPESSWRSLK 333
                         89*********************************************************************.9********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.79E-40118255IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.9E-39120241IPR015300DNA-binding pseudobarrel domain
CDDcd100171.08E-19124226No hitNo description
PfamPF023629.8E-21126227IPR003340B3 DNA binding domain
PROSITE profilePS5086311.702126228IPR003340B3 DNA binding domain
SMARTSM010199.5E-22126228IPR003340B3 DNA binding domain
PfamPF065078.3E-33252333IPR010525Auxin response factor
PfamPF023095.3E-6673727IPR033389AUX/IAA domain
SuperFamilySSF542776.38E-13685768No hitNo description
PROSITE profilePS5174525.228691784IPR000270PB1 domain
PfamPF023092.8E-8733776IPR033389AUX/IAA domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008285Biological Processnegative regulation of cell proliferation
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: 814 aa     Download sequence    Send to blast
MPPVAMAPPQ APSAGDPLFN ELWHACAGPL VTVPRVNDLV FYFPQGHIEQ VEASMNQVAD  60
NQMRLYDLPP KLLCRVINVE LKAEADTDEV YAQVMLMPEN DQNEMAVEKS SSTAGTTLPK  120
PAVRSFCKTL TASDTSTHGG FSVLRRHADE CLPPLDMTQS PPTQELVAKD LHGMDWRFRH  180
IFRGQPRRHL LQSGWSVFVS SKRLVAGDAF IFLRGESGEL RVGVRRAMRQ LSNVPSSVIS  240
SHSMHLGVLA TAWHAINTKS MFTVYYKPRT SPSEFIIPYD QYMESVKNNY SIGVRFRMRF  300
EGEEAPEQRF TGTIIGSENL DPLWPESSWR SLKVRWDEPS TIPRPDRVSP WKIEPASSPP  360
VNPLPLSRVK RPRPNVPPAS PESSALTKEG ATKVDVDSAQ AQRNQNSMVL QGQEPMTLRT  420
NNLTDSNDSD ATVQKPMMWS PSPNIGKSHP LTFQQRPSMD NWMQLGRSET DFKDASSGAQ  480
SFGDSPGFFV QTYDEAPNHL ASFKNQFQDQ GPARHFSDPY FFMHQQPNLT VDSSTKMHPE  540
TNELRFWNGQ NSVYGHSGDQ SQGFRFEEHP SNWSSQQFCR VEQPRVIRPH ASIAPVDLEK  600
TREGSGFKIF GFKVDTASAP SNHLSSPMAA THDPALHTQP SASLNQLQHA QTDCPEVSVS  660
TGGTNENEKS IQQAPQSSKD VQSKSHGAST RSCTKVHKQG VALGRSVDLS KFSDYDELKA  720
ELDKMFEFDG ELMSSNKNWQ IVYTDNEGDM MLVGDDPWEE FCSIVRKICI YTKEEVQKMN  780
SKLSAPRKED GAAAACDGAN ENATLPAPGN LDN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1661635817357Auxin response factor 1
4ldw_A1e-1661635817357Auxin response factor 1
4ldw_B1e-1661635817357Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1369373KRPRP
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
PlantRegMapBrast01G036800.1.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
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.40.0auxin 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]