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.6KG357800.1.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: 1085aa    MW: 120392 Da    PI: 6.6539
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6KG357800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B368.31e-21132233199
                          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++   W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F 
  Pavir.6KG357800.1.p 132 FCKTLTASDTSTHGGFSVPRRAAERIfphldfsM-QPPA-QELQARDLHDSIWTFRHIYRGQPKRHLLTTGWSLFVSGKRLLAGDSVLFI 219
                          99*****************************954.4444.49************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                          +d   +++l+++++r+
  Pavir.6KG357800.1.p 220 RD--ARQQLLLGIRRA 233
                          54..566679999987 PP
2Auxin_resp119.52.6e-39258341183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaa+++s F+v+YnPras+seFv++++k++ka++ +++s+GmRf+m+fete+s +rr++Gt++g+sd+dpvrW+nS+Wr+++
  Pavir.6KG357800.1.p 258 AAHAAANNSQFTVFYNPRASPSEFVIPFAKYQKAVYsNQLSLGMRFRMMFETEESGTRRYMGTITGISDMDPVRWKNSQWRNIQ 341
                          79*********************************989*******************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.1E-40122261IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.0E-38125247IPR015300DNA-binding pseudobarrel domain
CDDcd100171.14E-17131221No hitNo description
PROSITE profilePS5086311.462132234IPR003340B3 DNA binding domain
PfamPF023621.1E-19132233IPR003340B3 DNA binding domain
SMARTSM010192.3E-19132234IPR003340B3 DNA binding domain
PfamPF065072.8E-34258341IPR010525Auxin response factor
PfamPF023092.2E-99641051IPR033389AUX/IAA domain
PROSITE profilePS5174526.9479661050IPR000270PB1 domain
SuperFamilySSF542775.56E-89691045No hitNo description
CDDcd059921.34E-49701048No 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: 1085 aa     Download sequence    Send to blast
MATPGTSSGG AGGEAGGGAT KVNQELWYAC AGPLVALPPA GSLVVYFPQG HSEQVAASMR  60
KDADAKIPSY PNLPSKLICI LISVTMHADP DTDEVYARMT LQPVSNVTQC DKETLLASEL  120
ALKQTRPQTE FFCKTLTASD TSTHGGFSVP RRAAERIFPH LDFSMQPPAQ ELQARDLHDS  180
IWTFRHIYRG QPKRHLLTTG WSLFVSGKRL LAGDSVLFIR DARQQLLLGI RRANRQPVNL  240
SSSVLSSDSM HIGILAAAAH AAANNSQFTV FYNPRASPSE FVIPFAKYQK AVYSNQLSLG  300
MRFRMMFETE ESGTRRYMGT ITGISDMDPV RWKNSQWRNI QVAWDEAAPS ERRTRVSLWE  360
IEPVIAPFFI YPSPLFTAKR PRQPGITDDE TSDMENLFKR TMPWFGEEIY KKDLNTQNNL  420
VPGLSLVQWM QQNPSLTSTV GQPELLHSLA GKPVQTLAAA DLSRQISFQP QFLQQNNIQF  480
NTSLLPPQNQ QTEQLAKVIA TPNQSESVTV SQKVVQDCNP EQKQHAITQP VQGNQPTKSV  540
AQPQFVVQNQ LQQPQVILQA QPQQPQVIVQ AQIQQQQHLV QNHTILQSGT QRIHLLQQQQ  600
PHLQQQPQQV QQSVQEQQQI KIQPIQVPND MNMITQLSDH QMKIQLLKAL QPQQPLIMEQ  660
QKMFMDLQHQ TVNSNSQSSA QQCAQVATQV GGMHNSNTIQ YPTQQKTQPH QPIQDFPGNA  720
ASVANPEIAT SVGARSLHVP SGVQSLKTED VPSSSTSPPA NNNPVLLQSL PCSSKNQSLL  780
AVAKTPQSSA IAGPTLEQGM KPYESTQQMV INTRMDYLDT SSSATSVCLS QADGSLHQNF  840
PPSSFNQHQM LRETVPDSEF EVTDPGNNFL FGANIDGHLE SLNADALLAN NFETEKYMDQ  900
MPGAPGRGIS NYISSKDSQQ ELSSSMISHS FGVAEIAFNS IDSSINDTPF LNRNSRPPPP  960
AHQRIRTYTK VHKRGAVGRS IDINRYSGYD ELKHDVARMF GIEGQLIDQN RGGWKLVYED  1020
HEKDVLLVGD DPWEDFVNCV RCIRILSPQE EMQMRLASDF GDSFLPNQAC SSSDGVHPWR  1080
VSGD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1601436243388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.158160.0callus| leaf| root| stem
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.6KG357800.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin under dark condition. Down-regulated by auxin under light condition. {ECO:0000269|PubMed:17408882}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025820393.10.0auxin response factor 21-like isoform X1
SwissprotQ6YZW00.0ARFU_ORYSJ; Auxin response factor 21
TrEMBLA0A3L6RML10.0A0A3L6RML1_PANMI; Auxin response factor
STRINGPavir.Fa00483.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP140935106
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. 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]