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.5NG098400.1.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: 370aa    MW: 39395.5 Da    PI: 10.1784
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG098400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP2422.3e-1379127155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                          s+ykGV   + +grW A+I++      r +r++lg+f  +e Aa+a++ a+++++g
  Pavir.5NG098400.1.p  79 SRYKGVVPQP-NGRWGAQIYE------RhARVWLGTFPDEEAAARAYDVAALRYRG 127
                          78****9888.8*********......44*************************98 PP
2B399.22.4e-31194291190
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+ tpsdv+k++rlv+pk++ae+h       +  + +++ l +ed +g++W+++++y+++s++yvltkGW++Fv+++gL++gD++vF+
  Pavir.5NG098400.1.p 194 FEKAVTPSDVGKLNRLVVPKQHAEKHfplkrspEAATGKGVLLNFEDGDGKVWRFRYSYWNSSQSYVLTKGWSRFVREKGLRAGDTIVFS 283
                          89***************************98886667799************************************************** PP

                          E-SS.SEE CS
                   B3  84 ldgr.sef 90 
                          ++    e+
  Pavir.5NG098400.1.p 284 HSTYgPEK 291
                          87554444 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000184.94E-1479135No hitNo description
PfamPF008471.5E-879127IPR001471AP2/ERF domain
SuperFamilySSF541712.29E-1779135IPR016177DNA-binding domain
PROSITE profilePS5103221.85280135IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.106.4E-2180135IPR001471AP2/ERF domain
SMARTSM003804.6E-2380141IPR001471AP2/ERF domain
SuperFamilySSF1019363.01E-30192298IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.108.5E-39192304IPR015300DNA-binding pseudobarrel domain
CDDcd100177.06E-30193285No hitNo description
PROSITE profilePS5086314.142194301IPR003340B3 DNA binding domain
SMARTSM010191.1E-22194300IPR003340B3 DNA binding domain
PfamPF023624.3E-28194286IPR003340B3 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: 370 aa     Download sequence    Send to blast
MGMVESISPT AAEASSASAA SSSRSTGAST ATTESGAAQQ PLAAAPGGAA AGEVSVSPAD  60
EQAVTSQPSA AAAVAQGSSR YKGVVPQPNG RWGAQIYERH ARVWLGTFPD EEAAARAYDV  120
AALRYRGREA ATNFPGAGAS APELAFLLAH SKAEIVDMLR KHTYADELRQ GLRRGRGMGA  180
RAQPTPAWAR ALLFEKAVTP SDVGKLNRLV VPKQHAEKHF PLKRSPEAAT GKGVLLNFED  240
GDGKVWRFRY SYWNSSQSYV LTKGWSRFVR EKGLRAGDTI VFSHSTYGPE KQLFIDCKKT  300
KAAATDAAGP AEKPKEAARV VRLFGVDIAG DGCQKRARPV EMAFEQGQEF LKKQCVVHHR  360
SPALGAFLL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-5219331113128DNA-binding protein RAV1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG098400.1.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
GenBankFP0958120.0FP095812.1 Phyllostachys edulis cDNA clone: bphyem125h21, full insert sequence.
GenBankFP0968350.0FP096835.1 Phyllostachys edulis cDNA clone: bphyem207b07, full insert 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-154Y1410_ORYSJ; AP2/ERF and B3 domain-containing protein Os01g0141000
TrEMBLA0A2S3HXM70.0A0A2S3HXM7_9POAL; Uncharacterized protein
STRINGPavir.Eb00702.1.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-90related 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]