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.5NG098700.1.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: 304aa    MW: 33858.2 Da    PI: 10.3001
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG098700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP238.62.7e-123583155
                  AP2  1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55
                         s++kGV   + +grW A+I+d      r +r++lg+f  +e Aa+a++ a+ +++g
  Pavir.5NG098700.1.p 35 SRFKGVVPQP-NGRWGAQIYD------RhARVWLGTFADEEIAARAYDVAAVRYRG 83
                         689***9788.8*********......44*************************98 PP
2B3971.2e-30150244184
                          EEEE-..-HHHHTT-EE--HHH.HTT........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                          f+kv tpsdv+k++rlv+pk++ae+h        ++ + +++ l +ed +g++W+++++y+k+s++yvltkGW++Fv+++gL++gD+v F
  Pavir.5NG098700.1.p 150 FEKVVTPSDVGKLNRLVVPKQHAEKHfplkrapeEKTTGKGVLLNFEDGEGKVWRFRYSYWKSSQSYVLTKGWSRFVREKGLRAGDTVAF 239
                          99***************************999887777799************************************************* PP

                          E...E CS
                   B3  83 k...l 84 
                          +   +
  Pavir.5NG098700.1.p 240 SqsvY 244
                          94433 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008474.0E-63583IPR001471AP2/ERF domain
SuperFamilySSF541712.09E-163591IPR016177DNA-binding domain
CDDcd000181.42E-213591No hitNo description
Gene3DG3DSA:3.30.730.104.2E-203691IPR001471AP2/ERF domain
SMARTSM003801.3E-233697IPR001471AP2/ERF domain
PROSITE profilePS5103220.5213691IPR001471AP2/ERF domain
PRINTSPR003679.3E-73748IPR001471AP2/ERF domain
PRINTSPR003679.3E-77393IPR001471AP2/ERF domain
SuperFamilySSF1019362.09E-29148241IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.9E-37148257IPR015300DNA-binding pseudobarrel domain
CDDcd100173.95E-29149239No hitNo description
PROSITE profilePS5086314.762150260IPR003340B3 DNA binding domain
SMARTSM010191.4E-22150259IPR003340B3 DNA binding domain
PfamPF023626.6E-28150244IPR003340B3 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: 304 aa     Download sequence    Send to blast
MDSSTELVAF AASNSSLESG PNELAAPHLL SRQPSRFKGV VPQPNGRWGA QIYDRHARVW  60
LGTFADEEIA ARAYDVAAVR YRGREAITNF PGERVSAGEL AFLAAHSRSE IVDMLRKHTY  120
AAELRQGLRR GRGMGARAQP TPLWAWKLLF EKVVTPSDVG KLNRLVVPKQ HAEKHFPLKR  180
APEEKTTGKG VLLNFEDGEG KVWRFRYSYW KSSQSYVLTK GWSRFVREKG LRAGDTVAFS  240
QSVYGQQDNN QLLINYRKTP RKQQDEGPDD AIAAEARSIK LFGVDITGGG RKASEGHGEF  300
LET*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A2e-4614925713115DNA-binding protein RAV1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG098700.1.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
GenBankFP0958121e-180FP095812.1 Phyllostachys edulis cDNA clone: bphyem125h21, full insert sequence.
GenBankFP0968351e-180FP096835.1 Phyllostachys edulis cDNA clone: bphyem207b07, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025818627.11e-177AP2/ERF and B3 domain-containing protein Os01g0141000-like
SwissprotQ9AWS01e-117Y1410_ORYSJ; AP2/ERF and B3 domain-containing protein Os01g0141000
TrEMBLA0A1E5VZN11e-176A0A1E5VZN1_9POAL; Putative AP2/ERF and B3 domain-containing protein
TrEMBLA0A2S3HXU61e-176A0A2S3HXU6_9POAL; Uncharacterized protein
STRINGPavir.Eb00701.1.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
AT1G13260.13e-82related to ABI3/VP1 1
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]