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 Pavir.4KG097600.1.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family ARF
Protein Properties Length: 1056aa    MW: 116642 Da    PI: 6.689
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.4KG097600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.45.5e-23128229199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+lt sd++++g +++p++ ae++       + ++++ ++l+ +d++  sW++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F 
  Pavir.4KG097600.1.p 128 FCKTLTASDTSTHGGFSVPRRAAEKIfppldftM-QPPT-QELIAKDLHDISWKFRHIYRGQPKRHLLTTGWSVFVSTKRLLAGDSVLFI 215
                          99*****************************954.4444.38************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            ++++ +l+++++r 
  Pavir.4KG097600.1.p 216 --RDEKSQLLLGIRRV 229
                          ..45677789999985 PP
2Auxin_resp122.92.3e-40254336183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaa+++s+F+++YnPras+seFv++++k++kal+++vs+GmRf+m feteds  rr++Gt++g+ dldp+rW+nS+Wr+L+
  Pavir.4KG097600.1.p 254 AAHAAANSSPFTIFYNPRASPSEFVIPLAKYNKALYTQVSLGMRFRMLFETEDSGVRRYMGTITGIGDLDPIRWKNSHWRNLQ 336
                          79*******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.75E-44118257IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.7E-40120243IPR015300DNA-binding pseudobarrel domain
CDDcd100173.94E-20127228No hitNo description
SMARTSM010191.5E-23128230IPR003340B3 DNA binding domain
PfamPF023624.7E-21128229IPR003340B3 DNA binding domain
PROSITE profilePS5086312.069128230IPR003340B3 DNA binding domain
PfamPF065074.1E-35254336IPR010525Auxin response factor
PfamPF023092.4E-99371026IPR033389AUX/IAA domain
PROSITE profilePS5174525.7479401033IPR000270PB1 domain
SuperFamilySSF542771.08E-89561019No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 1056 aa     Download sequence    Send to blast
MKDQGSGGVT PSPAEAGDKK PINSELWHAC AGPLVSLPPM GSLVVYFPQG HSEQVAASMH  60
KELDTIPSYP SLPSKLICKL LSLTLHADSE TDEVYAQMTL QPVNKYDRDA MLASELGLKQ  120
NKQPAEFFCK TLTASDTSTH GGFSVPRRAA EKIFPPLDFT MQPPTQELIA KDLHDISWKF  180
RHIYRGQPKR HLLTTGWSVF VSTKRLLAGD SVLFIRDEKS QLLLGIRRVS RPQPALSSSV  240
LSSDSMHIGI LAAAAHAAAN SSPFTIFYNP RASPSEFVIP LAKYNKALYT QVSLGMRFRM  300
LFETEDSGVR RYMGTITGIG DLDPIRWKNS HWRNLQVGWD ESTASERRTR VSIWEIEPVA  360
TPFYICPPPF FRPKLPKQPG MPDDENEVES AFKRAMPWLA DDFALKDVQN ALFPGLSLVQ  420
WMAMQQNPQM LAAAAPSVQS QYLTSNALGM QDGIGNVNED PAKRLSMQAQ NIGLPNLQAG  480
TKMDHPALTS LAQQQQQPHH VLQQQQVQPL QQSTTILQQQ QAQLLQQNAI HLQLQQEQLQ  540
RQQSQSPQQL KAPASLQPME QHKLKEQQPP GGQAVSQAQL LNQILQPSSS QLQQMGLPKS  600
PTQRPGLPSL TTMGSLPQPQ LTQSPQLQQT AEYQQALLQS QQPQLQQLSQ SELQLQLLQK  660
IQQQNLLSQL NPQHQSQLIQ QLSQKSQEIL QQQVLQHQLG GADAVGQLKH LQQTPLNHMI  720
GSMTPQQLVR SHSALVESEE PSSSTAPSGS RVSPINSLSR AQQGSRNLPE IPSTPHIEHL  780
LQEIQSKSDN RIKNDIQGSK ETVHAPSRHP VSDQLDASSA TSFCLDESPR EGFSFPPVCL  840
DSNAQVNPRD NFLIAENVDT LMPDALLSRG MSSGKGLCNL PSGQRDHRDV ENGLSSAAFS  900
SQSFGVPDMS FKPGCSSDVA VADGGMASQG LWNSQTQRMR TFTKVQKRGS VGRSIDITRY  960
RGYEDLRHDL ACMFGIQGQL EDPYRTDWKL VYVDHENDIL LVGDDPWEEF VSCVKSIKIL  1020
SSAEVQQMSL DGDLGCIPPQ AQACSASDDA NAWRA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1651535743388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.300690.0callus| root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.4KG097600.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin under dark condition. {ECO:0000269|PubMed:17408882}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKJ7277410.0KJ727741.1 Zea mays clone pUT5682 ARF transcription factor (ARF27) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025812098.10.0auxin response factor 16 isoform X1
SwissprotA3B9A00.0ARFP_ORYSJ; Auxin response factor 16
TrEMBLA0A3L6S1E90.0A0A3L6S1E9_PANMI; Auxin response factor
STRINGSi005753m0.0(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP90453338
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19220.10.0auxin response factor 19
Publications ? help Back to Top
  1. Shen C, et al.
    OsARF16, a transcription factor, is required for auxin and phosphate starvation response in rice (Oryza sativa L.).
    Plant Cell Environ., 2013. 36(3): p. 607-20
    [PMID:22913536]
  2. Shen C, et al.
    OsARF16 is involved in cytokinin-mediated inhibition of phosphate transport and phosphate signaling in rice (Oryza sativa L.).
    PLoS ONE, 2014. 9(11): p. e112906
    [PMID:25386911]
  3. Shen C, et al.
    OsARF16, a transcription factor regulating auxin redistribution, is required for iron deficiency response in rice (Oryza sativa L.).
    Plant Sci., 2015. 231: p. 148-58
    [PMID:25576000]