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.1NG027300.3.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: 888aa    MW: 98643.4 Da    PI: 7.0671
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG027300.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B367.22.3e-2171172199
                          EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                          f+k+lt sd++++g +++p++ ae++      +++++  ++l+ +d +  +W++++i+r++++r++lt+GW+ Fv  ++L +gD+v+F  
  Pavir.1NG027300.3.p  71 FCKTLTASDTSTHGGFSVPRRAAEKIlppldfNMQPPA-QELQARDIHDTVWTFRHIFRGQPKRHLLTTGWSLFVGGKRLFAGDSVIFV- 158
                          99*****************************9555544.49************************************************. PP

                          -SSSEE..EEEEE-S CS
                   B3  85 dgrsefelvvkvfrk 99 
                           ++++++l+++++r+
  Pavir.1NG027300.3.p 159 -RDERQQLLLGIRRA 172
                          .4577888****997 PP
2Auxin_resp117.89e-39197280183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaa+++s+F+++YnPras++eFv++++k++kal+ +++s+GmRf+m+fete+   rr++Gt++g+sdldpvrW+nS+Wr+L+
  Pavir.1NG027300.3.p 197 AAHAAANNSPFTIFYNPRASPTEFVIPFAKYQKALYsNQISLGMRFRMMFETEELGMRRYMGTITGISDLDPVRWKNSQWRNLQ 280
                          79*********************************989********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.49E-4060200IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.9E-3964186IPR015300DNA-binding pseudobarrel domain
CDDcd100176.69E-1870162No hitNo description
SMARTSM010193.2E-2071173IPR003340B3 DNA binding domain
PfamPF023625.9E-1971172IPR003340B3 DNA binding domain
PROSITE profilePS5086311.49171173IPR003340B3 DNA binding domain
PfamPF065071.1E-33197280IPR010525Auxin response factor
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: 888 aa     Download sequence    Send to blast
MQKDIDAHVP SYPNLPSKLI CLLHSVTLHA DPDTDEVYAQ MTLQPVNTYG KEALQLSELA  60
LKHARPQMEF FCKTLTASDT STHGGFSVPR RAAEKILPPL DFNMQPPAQE LQARDIHDTV  120
WTFRHIFRGQ PKRHLLTTGW SLFVGGKRLF AGDSVIFVRD ERQQLLLGIR RASRQPTNIS  180
SSVLSSDSMH IGVLAAAAHA AANNSPFTIF YNPRASPTEF VIPFAKYQKA LYSNQISLGM  240
RFRMMFETEE LGMRRYMGTI TGISDLDPVR WKNSQWRNLQ VGWDESAAGE RRNRVSMWEI  300
EPIAAPFFIC PQPFFGVKRP RQLDDESSEM ENLFKRTMPW LGEEICLKDA QTQNTTMPGL  360
SLVQWMNMNR QQSSTLANTG IQSEYMHTLS NPAMQNLGAT ELARQLYVQS HLLQQNSAQL  420
NASKLPQQMQ PINELSKGVL FFNQLDAISN QEQKQEAGNQ QRQQQQPVSQ AIPLSQAQAT  480
LVQAQVIVQN QQQQQPQQSS PTKNQQGTSN QQLLLSQQQQ DQNLQLQQQQ QLLLQQLQRQ  540
QQQQHNQQLN KLPGQLMNMA GQQTQLSDQE LQLQLLQKLQ QQSLISQPAV TLSRLPLIQE  600
QQKLLLDMQQ LSSSRSLAQQ RIMPQQDSKV SLQASSAPPP MKQEQQQKLS HKQVALADVS  660
DVAFPPISST NITGKAGSTL IIPGAAQSVL TEEIPSCSTS PSTANGNHLA HPTTGRNEHC  720
KVNIDKVPQS SALMSVPTSV EAVTAAPIMG KDLPKLNHNV KGNVITSKSP TGATGPDNLF  780
NNVPSTDNLE TASSATSLWP TQTDGLLHQG FPTSNFNQQQ MFKDALPDVE IQDADPTNNA  840
FFGISNDGPL GFPIETEGLL KSLAPCTSTE NADIHQGLQT WSCRPVN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-141930196388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.151440.0callus| leaf| 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.1NG027300.3.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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHM0045350.0HM004535.1 Zea mays auxin response factor 20 (ARF20) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025801433.10.0auxin response factor 5-like
SwissprotQ6Z2W30.0ARFE_ORYSJ; Auxin response factor 5
TrEMBLA0A2T7F1S50.0A0A2T7F1S5_9POAL; Auxin response factor
STRINGPavir.J32718.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19220.10.0auxin response factor 19