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.5NG007400.3.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: 542aa    MW: 60329.1 Da    PI: 6.5772
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG007400.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B352.31e-168703498
                         SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
                   B3 34 ktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
                         ++l+ +d++g +W++k+iyr++++r++lt+GW+ Fv +++L +gD +v  +  +++++ +v+v+r
  Pavir.5NG007400.3.p  8 QELITKDLHGSEWRFKHIYRGQPRRHLLTTGWSTFVTSKKLIAGDAFVYLR--SETGKQRVGVRR 70
                         58999******************************************9994..477777999997 PP
2Auxin_resp97.61.8e-3296177183
           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.5NG007400.3.p  96 ASHAIKTNSIFLVYYRPRLSQSQYIVSLNKYLEASKIGFNVGMRFKMSFEGEDVPVKKFSGTVVDKGDLSP-QWQGSEWKTLK 177
                          789********************************************************************.********996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086311.632172IPR003340B3 DNA binding domain
SuperFamilySSF1019361.23E-19299IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.0E-20485IPR015300DNA-binding pseudobarrel domain
CDDcd100171.07E-10470No hitNo description
PfamPF023622.9E-14770IPR003340B3 DNA binding domain
PfamPF065073.5E-2896177IPR010525Auxin response factor
PfamPF023098.5E-6433479IPR033389AUX/IAA domain
SuperFamilySSF542771.86E-5440516No hitNo description
PROSITE profilePS5174519.826443523IPR000270PB1 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: 542 aa     Download sequence    Send to blast
MSMPTPTQEL ITKDLHGSEW RFKHIYRGQP RRHLLTTGWS TFVTSKKLIA GDAFVYLRSE  60
TGKQRVGVRR LVQKQSTMPA SVISSQSMHL GVLASASHAI KTNSIFLVYY RPRLSQSQYI  120
VSLNKYLEAS KIGFNVGMRF KMSFEGEDVP VKKFSGTVVD KGDLSPQWQG SEWKTLKVQW  180
DEATNFNGPD KVSSWEIEPF DASAPTINIP VQPSTKNKRH RETAEGLDIQ AMEPTQEFWL  240
SGIPEQHEKT GIGSNEPNCI SGHQVVWTSE RAGYSAMSSS VCQSSVVLGN WFKDYNSSSK  300
GGSPSLSEIS QKLFQVTSND ARVPPWPGLS AYQAEEPSSK LSCNTALCSY QTEEVAPNLS  360
NAIEEKKEPC MFRLFGVNLI NHTKSSATAD KMTMGVGEVS TQAAGSFEDY GQLSALTKVI  420
KDHMPLLNER PREIQSHQSC TGRTRIKVQM HGNAVGRAVD LANLDGYPQL IGELEEMFEI  480
KDLSSKEKWK VAFTNDDGDT MEVGDVPWLE FCLKVRKIVI HSIEDESDMD PCLEQDVKTG  540
F*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A3e-831202155357Auxin response factor 1
4ldw_A3e-831202155357Auxin response factor 1
4ldw_B3e-831202155357Auxin response factor 1
4ldx_A3e-831202155357Auxin response factor 1
4ldx_B3e-831202155357Auxin 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.5NG007400.3.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)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G46530.21e-102auxin response factor 11
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]