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.5KG097700.1.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 RAV
Protein Properties Length: 366aa    MW: 39275.5 Da    PI: 10.3466
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG097700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP2422.3e-1373121155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                          s+ykGV   + +grW A+I++      r +r++lg+f  +e Aa+a++ a+++++g
  Pavir.5KG097700.1.p  73 SRYKGVVPQP-NGRWGAQIYE------RhARVWLGTFPDEEAAARAYDVAALRYRG 121
                          78****9888.8*********......44*************************98 PP
2B396.12.3e-30188282187
                          EEEE-..-HHHHTT-EE--HHH.HTT........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                          f+k+ tpsdv+k++rlv+pk++a +h        +  + +++ l +ed +g++W+++++y+++s++yvltkGW++Fv+++gL++gD++vF
  Pavir.5KG097700.1.p 188 FEKAVTPSDVGKLNRLVVPKQHAVKHfplkrsppEAATGKGVLLNFEDGEGKVWRFRYSYWNSSQSYVLTKGWSRFVREKGLRAGDTIVF 277
                          89***************************988876666799************************************************* PP

                          EE-SS CS
                   B3  83 kldgr 87 
                          +++  
  Pavir.5KG097700.1.p 278 SHSTY 282
                          *8754 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000184.97E-1473129No hitNo description
SuperFamilySSF541712.22E-1773129IPR016177DNA-binding domain
PfamPF008471.5E-873121IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.106.3E-2174129IPR001471AP2/ERF domain
PROSITE profilePS5103221.85274129IPR001471AP2/ERF domain
SMARTSM003804.6E-2374135IPR001471AP2/ERF domain
SuperFamilySSF1019368.11E-29186283IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.2E-36186297IPR015300DNA-binding pseudobarrel domain
CDDcd100172.10E-28187280No hitNo description
SMARTSM010193.3E-21188293IPR003340B3 DNA binding domain
PfamPF023623.3E-27188280IPR003340B3 DNA binding domain
PROSITE profilePS5086313.972188296IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 366 aa     Download sequence    Send to blast
MGMVESISPT AAEASTSSRS TGASTATTES GAAQPPLAAA PGGAAGGEVV SPADEQAVTP  60
QPSAAAAVPQ GSSRYKGVVP QPNGRWGAQI YERHARVWLG TFPDEEAAAR AYDVAALRYR  120
GREAATNFPG AGASAPELAF LLAHSKAEIV DMLRKHTYAD ELRQGLRRGR GMGARAQPTP  180
AWARALLFEK AVTPSDVGKL NRLVVPKQHA VKHFPLKRSP PEAATGKGVL LNFEDGEGKV  240
WRFRYSYWNS SQSYVLTKGW SRFVREKGLR AGDTIVFSHS TYGPEKQLFI DYKKTNKTAA  300
APAEKPKEAA ARVVRLFGVD IAGDGCQKRA RPPVEMAFEQ GHQEFLMKKQ CVAHHRSPAL  360
GAFLL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A6e-4918729313115DNA-binding protein RAV1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG097700.1.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
GenBankAC2116060.0AC211606.1 Oryza glaberrima clone OG_BBa0048H17, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025814327.10.0AP2/ERF and B3 domain-containing protein Os01g0141000-like
SwissprotQ9AWS01e-151Y1410_ORYSJ; AP2/ERF and B3 domain-containing protein Os01g0141000
TrEMBLA0A2S3HXM70.0A0A2S3HXM7_9POAL; Uncharacterized protein
STRINGPavir.Ea00549.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP45638203
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68840.22e-89related to ABI3/VP1 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]