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.3KG436500.1.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: 793aa    MW: 87014.4 Da    PI: 6.8246
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG436500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.46.7e-24156257199
                          EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                          f+k+lt sd++++g +++ +++a+e+     +++++ +++l+ +d++g +W++++i+r++++r++l++GW+ Fv+a++L +gD ++F   
  Pavir.3KG436500.1.p 156 FCKTLTASDTSTHGGFSVLRRHADEClppldMSQHPPNQELVAKDLHGVEWRFRHIFRGQPRRHLLQSGWSVFVSAKRLVAGDAFIFL-- 243
                          99*****************************555555669************************************************.. PP

                          SSSEE..EEEEE-S CS
                   B3  86 grsefelvvkvfrk 99 
                          + +++el+v+v+r+
  Pavir.3KG436500.1.p 244 RGENGELRVGVRRA 257
                          449999*****985 PP
2Auxin_resp110.22.1e-36282364183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          a+ha++t+s+F+++Y+Pr+s++eFvv+++++ ++lk+++s+GmRfkm+fe+e+++e++++Gt+vg+ ++dp+ W +SkWrsLk
  Pavir.3KG436500.1.p 282 AWHAVNTGSMFTIYYKPRTSPAEFVVSRDRYYESLKRNYSIGMRFKMRFEGEEAAEQKFTGTIVGIGASDPSGWADSKWRSLK 364
                          89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.7E-40152271IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.85E-41152285IPR015300DNA-binding pseudobarrel domain
CDDcd100171.14E-21154256No hitNo description
SMARTSM010197.7E-23156258IPR003340B3 DNA binding domain
PfamPF023621.0E-21156257IPR003340B3 DNA binding domain
PROSITE profilePS5086311.73156258IPR003340B3 DNA binding domain
PfamPF065073.2E-33282364IPR010525Auxin response factor
SuperFamilySSF542772.8E-11658743No hitNo description
PROSITE profilePS5174523.045664746IPR000270PB1 domain
PfamPF023093.7E-7711749IPR033389AUX/IAA 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: 793 aa     Download sequence    Send to blast
MAAAAAAGGG SGGGGPEAGG GGGGGGGGGG GGGKDALFVE LWKACAGPLS SVPPLGEKVY  60
YLPQGHIEQV EASTNQLAEQ QGTPLYNLPW KIPCKLMNIE LKAEPDTDEV YAQLTLLPDK  120
KRDENTTTTV ESGDPEEEVV PNAPPATNEQ LRIHSFCKTL TASDTSTHGG FSVLRRHADE  180
CLPPLDMSQH PPNQELVAKD LHGVEWRFRH IFRGQPRRHL LQSGWSVFVS AKRLVAGDAF  240
IFLRGENGEL RVGVRRALRH QTTIPSSVIS SHSMHLGVLA TAWHAVNTGS MFTIYYKPRT  300
SPAEFVVSRD RYYESLKRNY SIGMRFKMRF EGEEAAEQKF TGTIVGIGAS DPSGWADSKW  360
RSLKVRWDEA SSVPRPERVS AWQIEPAVSP SPVNPLPPRF KRSRSNVNAS SPIMPNVTRE  420
VASKVMPDSQ QNSLPRAMHS QGRTQLIGRY RDSSDLKSAQ EHTMWSKGIE QERNNIGAQT  480
KLSLEGWTQT RRSEGYNQPL SAFQPLKDAQ NPLCSFPSQI SGNCSRTWDT VDAHYPVQQD  540
NHNILPGTWS LMPHNNGFRM DQQMDLSMSG APHPQRAEIA KFSGKSAFTP LQGHRIDQCS  600
SDWFGHIKPQ PLVIENDGQK TKGTSFKLFG FPLGSLEKSE PLVSPPSVAY DGKQTSPSER  660
NPKAGIIEVH KQGSALGRSI DLTKFTCYEE LIAELDQMFD FDGELSSPQK NWLVVYTDNE  720
GDMMLVGDDP WNEFCNMVHK ISIYTREEVE KMNPGALNSR SEDSLSDSLG RGLGSKEAPG  780
GPSASSRNSE NY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-169203862354Auxin response factor 1
4ldw_A1e-169203862354Auxin response factor 1
4ldw_B1e-169203862354Auxin response factor 1
4ldx_A1e-169203862354Auxin response factor 1
4ldx_B1e-169203862354Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.18710.0callus| 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.3KG436500.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0665440.0BT066544.1 Zea mays full-length cDNA clone ZM_BFb0026K11 mRNA, complete cds.
GenBankJX4285050.0JX428505.1 Zea mays subsp. mays clone pUT3103 ARF28 ARF type transcription factor mRNA, partial cds.
GenBankKJ7268060.0KJ726806.1 Zea mays clone pUT3124 ARF transcription factor (ARF28) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025806224.10.0auxin response factor 24-like
SwissprotQ2QQX60.0ARFX_ORYSJ; Auxin response factor 24
TrEMBLA0A2S3HDY20.0A0A2S3HDY2_9POAL; Auxin response factor
STRINGPavir.Cb00753.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP117836111
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
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]
  2. Li G, et al.
    Rice actin-binding protein RMD is a key link in the auxin-actin regulatory loop that controls cell growth.
    Proc. Natl. Acad. Sci. U.S.A., 2014. 111(28): p. 10377-82
    [PMID:24982173]