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.5NG025900.6.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: 1099aa    MW: 122197 Da    PI: 6.7176
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG025900.6.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.36.1e-2395196199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+lt sd++++g +++p++ ae++       + +++  ++++ +d++  +W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F 
  Pavir.5NG025900.6.p  95 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QEIQARDLHDSTWTFRHIYRGQPKRHLLTTGWSLFVSGKRLFAGDSVIFV 182
                          99*****************************954.4444.48************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            ++++++l+++++r+
  Pavir.5NG025900.6.p 183 --RDEKQQLLLGIRRA 196
                          ..5688889****997 PP
2Auxin_resp118.46e-39221304183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaa+++s+F+++YnPras++eFvv+++k++kal+ +++s+GmRf+m+fete+  +rr++Gt++g+sdldpvrW+nS+Wr+L+
  Pavir.5NG025900.6.p 221 AAHAAANNSPFTIFYNPRASPTEFVVPFAKYQKALYgNQISLGMRFRMMFETEELGTRRYMGTITGISDLDPVRWKNSQWRNLQ 304
                          79**********************************9*********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.53E-4384224IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.4E-4187210IPR015300DNA-binding pseudobarrel domain
CDDcd100173.49E-1994186No hitNo description
SMARTSM010191.2E-2295197IPR003340B3 DNA binding domain
PfamPF023627.4E-2195196IPR003340B3 DNA binding domain
PROSITE profilePS5086312.02695197IPR003340B3 DNA binding domain
PfamPF065071.1E-33221304IPR010525Auxin response factor
PfamPF023096.2E-109641050IPR033389AUX/IAA domain
PROSITE profilePS5174527.9759651049IPR000270PB1 domain
SuperFamilySSF542771.77E-79781044No 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: 1099 aa     Download sequence    Send to blast
MGHHMFGCGK DSVSASKYCE VAASMQKDVD GHVPSYPNLP SKLICLLHNV TLHADPETDE  60
VYAQMTLQPV TSYGKEALQL SELALKQPRP QTEFFCKTLT ASDTSTHGGF SVPRRAAEKI  120
FPPLDFSMQP PAQEIQARDL HDSTWTFRHI YRGQPKRHLL TTGWSLFVSG KRLFAGDSVI  180
FVRDEKQQLL LGIRRANRQP TNISSSVLSS DSMHIGILAA AAHAAANNSP FTIFYNPRAS  240
PTEFVVPFAK YQKALYGNQI SLGMRFRMMF ETEELGTRRY MGTITGISDL DPVRWKNSQW  300
RNLQVGWDES AAGERRNRVS IWEIEPVAAP FFICPPPFFG SKRPRQLDDE SSEMENLLKR  360
AMPWLGEEIC IKDPQTQNTI MPGLSLVQWM NMNMQQNSSF ANTAMHSEYL RSLSNPSMQN  420
LGAADLSRQL CLQNQILQQN SIQFSSPKLP QQMQPVNELS KATLPLNQLG VSTKQQEQTQ  480
DPSNLQRQQQ SMNQLNPLSQ SQTNLVQAQV LVQNQMQQQQ PPSMTQNQQS STSQPQLLPH  540
QQQQHQQQKL LHQQQQLLLQ QQQLQQQQQN QQQLNKMAAQ VPNLAAQQLQ LSDQQLQLQL  600
LQKLQQQQQQ SLLSQPAVTL AQLPLIQEQQ KLILDMQQQL SNSQSLSQQQ TMPQQSTKVP  660
SQTPPPPHMQ QEPQQKVPQK HVGFPDTSHA AIPPPSTSVN AISVAGSPLM ANGTTHSVLT  720
EEIPSCSTSP STANGNHLVQ PILGRNQQCG MINTEKVPQS TAPMSIPSSL DAVTAAPRAT  780
KELPKLNSNV KQSVMASKLP NPGPVPQNLV NSAPPTDYLE TASSATSVWL SQTDGLLHQG  840
FPMSNFNQQQ LFKDVPPETD IQGADPSNNA LFGINSDGQL GFPMGADGFL SNGIDTSKYQ  900
NHISTDIDGN YRIPKDGQQE ISSSMVSQSF GASDMAFNSI DSAMNDGGFL NRTSWPPAPP  960
LKRMRTFTKV YKRGAVGRSI DISQYSGYDE LKHALARMFS IEGQLEERQR IGWKLVYKDH  1020
EDDILLLGDD PWEEFVNCVR CIRILSPQEV QQMSLDGDLG NNILPNQACS SSDGGNAWRA  1080
RCDQNSGNPS NGSYDQFE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1442032583388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.7910.0callus| 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.5NG025900.6.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: 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_025810783.10.0auxin response factor 19-like isoform X3
SwissprotQ6Z2W30.0ARFE_ORYSJ; Auxin response factor 5
TrEMBLA0A2T7DUH40.0A0A2T7DUH4_9POAL; Auxin response factor
STRINGPavir.J00164.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19220.10.0auxin response factor 19