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.5KG097800.1.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: 308aa    MW: 34004.3 Da    PI: 10.2225
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG097800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP227.95.7e-093583155
                  AP2  1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55
                         s++kGV   + +grW A+I+d      r +r+ lg+f  +e Aa+a++  + ++ g
  Pavir.5KG097800.1.p 35 SRFKGVVPQP-NGRWGAQIYD------RhARVLLGTFPDEEIAARAYDVSAVRYCG 83
                         689***9788.8*********......44*******************99988865 PP
2B3962.5e-30150243184
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+kv tpsdv+k++r+v+pk++ae+h       ++ + +++ l +ed +g++W+++++y+++s++yvltkGW++Fv+++gL++gD+v F+
  Pavir.5KG097800.1.p 150 FEKVVTPSDVGKLNRFVVPKQHAEKHfplkrapEKTTGKGVLLNFEDGEGKVWRFRYSYWNSSQSYVLTKGWSRFVREKGLRAGDTVAFS 239
                          99***************************9998778889**************************************************9 PP

                          ...E CS
                   B3  84 ...l 84 
                             +
  Pavir.5KG097800.1.p 240 qpvY 243
                          5533 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000184.54E-193591No hitNo description
SuperFamilySSF541711.96E-143591IPR016177DNA-binding domain
SMARTSM003801.0E-193697IPR001471AP2/ERF domain
PROSITE profilePS5103218.43691IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.6E-173691IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.103.4E-37146253IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.97E-29148239IPR015300DNA-binding pseudobarrel domain
CDDcd100172.82E-28149238No hitNo description
SMARTSM010193.8E-21150258IPR003340B3 DNA binding domain
PfamPF023622.3E-27150243IPR003340B3 DNA binding domain
PROSITE profilePS5086314.565150259IPR003340B3 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: 308 aa     Download sequence    Send to blast
MDSGTEVAFA ALNSSLESGG ADELAALHLL SRQPSRFKGV VPQPNGRWGA QIYDRHARVL  60
LGTFPDEEIA ARAYDVSAVR YCGREAITNF PGERASAGEL AFLAAHSKSE IVDMLRKHTY  120
AAELRQGLRR GRGMGARAQP TPLWARKLLF EKVVTPSDVG KLNRFVVPKQ HAEKHFPLKR  180
APEKTTGKGV LLNFEDGEGK VWRFRYSYWN SSQSYVLTKG WSRFVREKGL RAGDTVAFSQ  240
PVYGQQDNNQ LLINYRKTPR KQDEAGHPDD AIAAEARSIK LLGVDIAGGG REAGEKGTAN  300
SWRHDNT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A3e-4514926813127DNA-binding protein RAV1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG097800.1.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_025818627.11e-176AP2/ERF and B3 domain-containing protein Os01g0141000-like
SwissprotQ9AWS01e-116Y1410_ORYSJ; AP2/ERF and B3 domain-containing protein Os01g0141000
TrEMBLA0A2S3HXU61e-175A0A2S3HXU6_9POAL; Uncharacterized protein
STRINGPavir.Ea00485.1.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
AT1G68840.28e-88related 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]