PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.5NG007400.1.p
Organism
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: 688aa    MW: 76665.9 Da    PI: 5.7551
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG007400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.42.4e-22116216198
                          EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                          f+k+ltpsd++++g +++ +++a+e+      +++ + +++l+ +d++g +W++k+iyr++++r++lt+GW+ Fv +++L +gD +v  +
  Pavir.5NG007400.1.p 116 FCKILTPSDTSTHGGFSVLRRHANEClppldmSMP-TPTQELITKDLHGSEWRFKHIYRGQPRRHLLTTGWSTFVTSKKLIAGDAFVYLR 204
                          99****************************96444.45569999******************************************9994 PP

                          -SSSEE..EEEEE- CS
                   B3  85 dgrsefelvvkvfr 98 
                            +++++ +v+v+r
  Pavir.5NG007400.1.p 205 --SETGKQRVGVRR 216
                          ..477777999997 PP

2Auxin_resp97.12.5e-32242323183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          a+ha++t+s+F v+Y+Pr s+s+++v+++k+++a k+ + vGmRfkm+fe+ed++ +++sGtvv+  dl+p +W++S+W+ Lk
  Pavir.5NG007400.1.p 242 ASHAIKTNSIFLVYYRPRLSQSQYIVSLNKYLEASKIGFNVGMRFKMSFEGEDVPVKKFSGTVVDKGDLSP-QWQGSEWKTLK 323
                          789********************************************************************.********996 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.06E-37106245IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.106.4E-36109231IPR015300DNA-binding pseudobarrel domain
CDDcd100171.86E-17114216No hitNo description
SMARTSM010193.0E-17116218IPR003340B3 DNA binding domain
PROSITE profilePS5086311.18116218IPR003340B3 DNA binding domain
PfamPF023623.0E-20116216IPR003340B3 DNA binding domain
PfamPF065075.0E-28242323IPR010525Auxin response factor
PfamPF023091.2E-5579625IPR033389AUX/IAA domain
PROSITE profilePS5174519.826589669IPR000270PB1 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: 688 aa     Download sequence    Send to blast
MAQGREPELF AELWRACAGP LVELPQTGER VFYFLQGHLE QLQEPTDPAL LAEQIKMFQV  60
PNKILCKVVN VELKAETETD EMFAQITLQP DPDQVNLSTL PDPPLPETPR PVVHSFCKIL  120
TPSDTSTHGG FSVLRRHANE CLPPLDMSMP TPTQELITKD LHGSEWRFKH IYRGQPRRHL  180
LTTGWSTFVT SKKLIAGDAF VYLRSETGKQ RVGVRRLVQK QSTMPASVIS SQSMHLGVLA  240
SASHAIKTNS IFLVYYRPRL SQSQYIVSLN KYLEASKIGF NVGMRFKMSF EGEDVPVKKF  300
SGTVVDKGDL SPQWQGSEWK TLKVQWDEAT NFNGPDKVSS WEIEPFDASA PTINIPVQPS  360
TKNKRHRETA EGLDIQAMEP TQEFWLSGIP EQHEKTGIGS NEPNCISGHQ VVWTSERAGY  420
SAMSSSVCQS SVVLGNWFKD YNSSSKGGSP SLSEISQKLF QVTSNDARVP PWPGLSAYQA  480
EEPSSKLSCN TALCSYQTEE VAPNLSNAIE EKKEPCMFRL FGVNLINHTK SSATADKMTM  540
GVGEVSTQAA GSFEDYGQLS ALTKVIKDHM PLLNERPREI QSHQSCTGRT RIKVQMHGNA  600
VGRAVDLANL DGYPQLIGEL EEMFEIKDLS SKEKWKVAFT NDDGDTMEVG DVPWLEFCLK  660
VRKIVIHSIE DESDMDPCLE QDVKTGF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-146934819357Auxin response factor 1
4ldw_A1e-146934819357Auxin response factor 1
4ldw_B1e-146934819357Auxin response factor 1
4ldx_A1e-146934819357Auxin response factor 1
4ldx_B1e-146934819357Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.168740.0callus| 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.5NG007400.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin under light or dark conditions. {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_025816439.10.0auxin response factor 1-like
SwissprotQ5NB850.0ARFA_ORYSJ; Auxin response factor 1
TrEMBLA0A2T7DTH30.0A0A2T7DTH3_9POAL; Auxin response factor
STRINGPavir.Eb00045.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP108236116
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G23980.11e-176auxin response factor 9
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]