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.5NG454300.1.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: 375aa    MW: 39334.4 Da    PI: 10.0707
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG454300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP238.62.6e-1272120155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                          s+ykGV   + +grW A+I++      r +r++lg+f  + eAa+a++ a+++++g
  Pavir.5NG454300.1.p  72 SRYKGVVPQP-NGRWGAQIYE------RhQRVWLGTFAGEAEAARAYDVAAQRFRG 120
                          78****9888.8*********......44**********99*************98 PP
2B395.24.4e-30200292185
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEE.TTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltled.esgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                          f+k+ tpsdv+k++rlv+pk++ae+h        g + +++ l +ed   g++W+++++y+++s++yvltkGW++Fvk++gL++gD+v F
  Pavir.5NG454300.1.p 200 FDKTVTPSDVGKLNRLVIPKQHAEKHfplqlpsAGGESKGVLLNFEDaAAGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKGLQAGDVVGF 289
                          89******************************95556799*******9999*************************************** PP

                          EE- CS
                   B3  83 kld 85 
                          +++
  Pavir.5NG454300.1.p 290 YRS 292
                          954 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541712.62E-1672128IPR016177DNA-binding domain
CDDcd000189.32E-2272128No hitNo description
PfamPF008471.5E-872120IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.103.1E-1973128IPR001471AP2/ERF domain
SMARTSM003808.8E-2573134IPR001471AP2/ERF domain
PROSITE profilePS5103219.82373128IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.7E-38192316IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.44E-29197292IPR015300DNA-binding pseudobarrel domain
CDDcd100173.11E-28198304No hitNo description
SMARTSM010191.0E-22200309IPR003340B3 DNA binding domain
PROSITE profilePS5086313.846200310IPR003340B3 DNA binding domain
PfamPF023621.3E-26200292IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048573Biological Processphotoperiodism, flowering
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 375 aa     Download sequence    Send to blast
MDSASSLVVD DTSGGGACRD KLRALAAAAA EGATLERMGS GASAVVDAAE PGAEADSGSA  60
GHAGAGGKLP SSRYKGVVPQ PNGRWGAQIY ERHQRVWLGT FAGEAEAARA YDVAAQRFRG  120
RDAVTNFRPL ADADPDAAAE LRFLASRSKA EVVDMLRKHT YFDELAQNKR AFAAATSSLA  180
GAHSPSFAPP SPARAREHLF DKTVTPSDVG KLNRLVIPKQ HAEKHFPLQL PSAGGESKGV  240
LLNFEDAAAG KVWRFRYSYW NSSQSYVLTK GWSRFVKEKG LQAGDVVGFY RSAAAAGADS  300
KLFIACRLRP SGVTASTAPV AEPSSAPVAK AVRLFGVDLL TAPAPAMAGC KRARDLAAPP  360
QAAFKKQLVE LALV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A2e-491963104114B3 domain-containing transcription factor NGA1
5os9_B2e-491963104114B3 domain-containing transcription factor NGA1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.1941e-135root
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00024PBMTransfer from AT1G25560Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG454300.1.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
GenBankFP0982980.0FP098298.1 Phyllostachys edulis cDNA clone: bphyem207d01, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025819477.10.0AP2/ERF and B3 domain-containing protein Os01g0693400-like
SwissprotQ8RZX90.0Y1934_ORYSJ; AP2/ERF and B3 domain-containing protein Os01g0693400
TrEMBLA0A3L6STZ80.0A0A3L6STZ8_PANMI; DNA-binding protein RAV1
STRINGPavir.Eb02845.1.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
AT1G68840.23e-95related to ABI3/VP1 2