PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00029169001
Common NameGSBRNA2T00029169001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family RAV
Protein Properties Length: 356aa    MW: 40241.7 Da    PI: 8.6253
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00029169001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP234.74.4e-1160108155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                          ++ykGV + + +g W A+I+       ++r++lg+f +a eAa+ ++ a  kl+g
  GSBRNA2T00029169001  60 TKYKGVVQQP-NGHWGAQIYAE-----HRRIWLGTFKSAAEAAASYDSASIKLRG 108
                          69********.8*********5.....5***********************9997 PP
2B388.84.4e-28193293186
                          EEEE-..-HHHHTT-EE--HHH.HTT...........---.........--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHH CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh...........ggkke.......esktltledesgrsWevkliyrkksgryvltkGWkeFvkan 72 
                          f k+ltpsdv+k++rlv+pkk+a +h           +   e        +++++++d+  r+W+++++y+++s+++v+t+GW++Fv+++
  GSBRNA2T00029169001 193 FSKELTPSDVGKLNRLVIPKKHAVKHlpfisdvqkerE---EgeiggalDDVEVVFYDRAMRQWKFRYCYWRSSQSFVFTRGWNGFVREK 279
                          889***************************98765540...15556666889************************************** PP

                          T--TT-EEEEEE-S CS
                   B3  73 gLkegDfvvFkldg 86 
                          +Lke+D++vF++ +
  GSBRNA2T00029169001 280 RLKEKDVIVFYHCD 293
                          ***********754 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000181.65E-2260119No hitNo description
Gene3DG3DSA:3.30.730.103.2E-1661118IPR001471AP2/ERF domain
SMARTSM003809.1E-1661126IPR001471AP2/ERF domain
PROSITE profilePS5103217.67561118IPR001471AP2/ERF domain
SuperFamilySSF541716.02E-1361118IPR016177DNA-binding domain
Gene3DG3DSA:2.40.330.101.8E-31185291IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.32E-28190293IPR015300DNA-binding pseudobarrel domain
CDDcd100171.26E-27191291No hitNo description
PROSITE profilePS5086311.547193304IPR003340B3 DNA binding domain
SMARTSM010197.6E-23193307IPR003340B3 DNA binding domain
PfamPF023624.3E-25193293IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 356 aa     Download sequence    Send to blast
MITLSSCISE RLAANGGMNS LNEAKTMTET SGSSNSVLCL ANPMEQPHVP TTTRSVLSDT  60
KYKGVVQQPN GHWGAQIYAE HRRIWLGTFK SAAEAAASYD SASIKLRGID ANSYRNFPWC  120
EITTHEPAFQ ANYTTEAVLN MIKDCSYQHK FMEYLRRRSQ MVDFANINIV AAASKQSRAG  180
RGVQDPFSCT PLFSKELTPS DVGKLNRLVI PKKHAVKHLP FISDVQKERE EGEIGGALDD  240
VEVVFYDRAM RQWKFRYCYW RSSQSFVFTR GWNGFVREKR LKEKDVIVFY HCDVPTNVKT  300
LQGQSNSFLM IDVDYFTDKG SVAPKEVDKM VHNTSEEEMK TETKGGFMLF GVRIQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-2319228913100DNA-binding protein RAV1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00029169001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009147781.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor At1g51120
SwissprotQ9C6881e-168RAVL3_ARATH; AP2/ERF and B3 domain-containing transcription factor At1g51120
TrEMBLA0A078GIV90.0A0A078GIV9_BRANA; BnaC06g04340D protein
STRINGBo6g024770.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM17052788
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G51120.11e-160RAV family protein
Publications ? help Back to Top
  1. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]