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.5KG436700.2.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: 564aa    MW: 63001.1 Da    PI: 8.3313
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG436700.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.14.1e-242103199
                          EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                          f+k+lt sd++++g +++p++ ae++      +++ + s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv+ ++L +gD v+F  
  Pavir.5KG436700.2.p   2 FCKTLTASDTSTHGGFSVPRRAAEDCfppldySLQRP-SQELVAKDLHGTEWKFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFL- 89 
                          99****************************9966654.569************************************************. PP

                          -SSSEE..EEEEE-S CS
                   B3  85 dgrsefelvvkvfrk 99 
                           + +++ l+++v+r+
  Pavir.5KG436700.2.p  90 -RGEDGVLRLRVRRA 103
                          .34888888888875 PP
2Auxin_resp65.91.4e-22129198282
           Auxin_resp   2 ahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                           +a++ ++vF+++YnPr s+seF+v+++k+++++++++svGmR +m+          ++G+++g ++++p  W++SkW+sL
  Pavir.5KG436700.2.p 129 TQAVALRTVFHICYNPRLSQSEFIVPYWKFMRSFNQPFSVGMRCRMR----------CTGIIIGSREAEP-MWHGSKWKSL 198
                          6788999**************************************95..........79***********.9*******98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.62E-411123IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.7E-371104IPR015300DNA-binding pseudobarrel domain
CDDcd100172.78E-231102No hitNo description
PfamPF023625.6E-222103IPR003340B3 DNA binding domain
SMARTSM010195.3E-232104IPR003340B3 DNA binding domain
PROSITE profilePS5086313.3662104IPR003340B3 DNA binding domain
PfamPF065073.4E-19129198IPR010525Auxin 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
Sequence ? help Back to Top
Protein Sequence    Length: 564 aa     Download sequence    Send to blast
MFCKTLTASD TSTHGGFSVP RRAAEDCFPP LDYSLQRPSQ ELVAKDLHGT EWKFRHIYRG  60
QPRRHLLTTG WSAFVNKKKL VSGDAVLFLR GEDGVLRLRV RRAAQLKNVN LIPALHNQCS  120
NHRNLGNVTQ AVALRTVFHI CYNPRLSQSE FIVPYWKFMR SFNQPFSVGM RCRMRCTGII  180
IGSREAEPMW HGSKWKSLVV RWDDDIECRR SNRVSPWEIE LTGSVSGSQS HLCAPNSKRL  240
KPCLPQVNTE IMLPYGSVSS DFAGSARFHK VLQGQEFLGF KTHDDTAISA SQATEARNLQ  300
YSDEHSSSIN KSNNILGVPR FGVRSPTGTP GFPYHCSGFG ESQRFQKVLQ GQEVFRPFRG  360
DLADVHIRTA GMYQPDCMHA TGAAYKWPTP QGCDFRQRTK PVLLQASSPS SVLMFSQTSS  420
KVPHLEYEYS CLDKDEDGRN DRAVPTQDMG RSNQALSLWP HLVSGEAIDE CTGTEKMHSP  480
VSDAEHESNN ESTVENGCKI FGISLAEQVR SCDEADSCNA NCNSRLQPSQ PQISKSLSSC  540
WATVHEQRPV VGRVVDVSLV DMV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A3e-722228124361Auxin response factor 1
4ldw_A3e-722228124361Auxin response factor 1
4ldw_B3e-722228124361Auxin response factor 1
4ldx_A4e-722228124361Auxin response factor 1
4ldx_B4e-722228124361Auxin response factor 1
4ldy_A4e-722228124361Auxin response factor 1
4ldy_B4e-722228124361Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.183340.0callus| 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.5KG436700.2.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
GenBankBT0690050.0BT069005.1 Zea mays full-length cDNA clone ZM_BFb0119L19 mRNA, complete cds.
GenBankJX4285080.0JX428508.1 Zea mays subsp. mays clone pUT3106 ARF12 ARF type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025818787.10.0auxin response factor 2-like
SwissprotQ0JKI90.0ARFB_ORYSJ; Auxin response factor 2
TrEMBLA0A2T7DIM00.0A0A2T7DIM0_9POAL; Auxin response factor
STRINGPavir.Eb02716.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-101ARF family protein
Publications ? help Back to Top
  1. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]