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.1NG060500.3.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: 837aa    MW: 92295.6 Da    PI: 6.0861
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG060500.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.91.1e-2467168199
                          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++g++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F  
  Pavir.1NG060500.3.p  67 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfNQQPP-TQELIAKDLHGNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI- 154
                          99*****************************844443.459************************************************. PP

                          -SSSEE..EEEEE-S CS
                   B3  85 dgrsefelvvkvfrk 99 
                           ++++ +l+++++r+
  Pavir.1NG060500.3.p 155 -WNDSNQLLLGIRRA 168
                          .7878889****997 PP
2Auxin_resp119.23.3e-39193276183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaast+s F+++YnPras+ eFv++++k++ka++ +++svGmRf+m fete+ss rr++Gt++g+sdldpvrWpnS+Wrs+k
  Pavir.1NG060500.3.p 193 AAHAASTNSRFTIFYNPRASPCEFVIPLSKYVKAVYhTRISVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWPNSHWRSVK 276
                          79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.18E-4852196IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.7E-4358182IPR015300DNA-binding pseudobarrel domain
CDDcd100171.70E-2266167No hitNo description
PfamPF023623.2E-2367168IPR003340B3 DNA binding domain
SMARTSM010193.2E-2567169IPR003340B3 DNA binding domain
PROSITE profilePS5086313.25367169IPR003340B3 DNA binding domain
PfamPF065075.3E-34193276IPR010525Auxin response factor
SuperFamilySSF542773.2E-8694780No hitNo description
PfamPF023091.1E-7696789IPR033389AUX/IAA domain
PROSITE profilePS5174525.028704788IPR000270PB1 domain
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: 837 aa     Download sequence    Send to blast
MESQIPNYPS LPPQLICQLH NVTMHADAET DEVYAQMTLQ PLSPQELKDP FLPAELGSAS  60
KQPTNYFCKT LTASDTSTHG GFSVPRRAAE KVFPPLDFNQ QPPTQELIAK DLHGNEWKFR  120
HIFRGQPKRH LLTTGWSVFV SAKRLVAGDS VLFIWNDSNQ LLLGIRRANR PQTVMPSSVL  180
SSDSMHIGLL AAAAHAASTN SRFTIFYNPR ASPCEFVIPL SKYVKAVYHT RISVGMRFRM  240
LFETEESSVR RYMGTITGIS DLDPVRWPNS HWRSVKVGWD ESTAGEKQPR VSLWEIEPLT  300
TLPMYPSPFA LGLKRPWHTG LPSLYGGRDD GLTSSLMWLR DGANPSFQSL NFGGLGTSPW  360
MQPRMDNSLL GLQSDMYQTI AAAALQGTTK QIPPSVMQFQ QPQNIVGRSA LLSNQIMQQV  420
QPQFQQIYSQ NINDNTVQGH THAEYLQHQL QRSQSFNEQK PQLHPQQQHQ ESQQQQECKQ  480
TPQNQQLHCL PNALSAFSQL SSGTQSPSST LPTVPAFSNQ NFPDTNVSSL APYGGSSMQG  540
MLGQLPSEAA SNLPCVARTT PLPISDPWSS KRVAVESVNP SRPHAVSTQI EQLDMTPCNL  600
PQNSALAPLP GRGCLVDQDG SSDPQNHLLF GVNIDSQSLL MQGGIPGHQN DNVSSTIPYS  660
TSNFPSPSQD DFPLNQPLPS AGCLDESGYV PCAENSEQAN QQFSTFVKVY KSGTVGRLLD  720
ITRFSSYDEL RSEVGRLFGL EGQLEDPLRS GWQLVFVDGE DDVLLVGDDP WQEFVNSVSC  780
IKILSPEEVQ QMGKQGIQLL SSAPARRISN GCDSYVSRQE SRSLSTGMAP VGSVEF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-137329794388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.127100.0callus| 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).
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.1NG060500.3.p
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_025823935.10.0auxin response factor 6-like isoform X1
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A2S3GLJ50.0A0A2S3GLJ5_9POAL; Auxin response factor
STRINGPavir.Aa03303.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.10.0auxin response factor 6
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]