PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00043338001
Common NameGSBRNA2T00043338001
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: 326aa    MW: 37503.8 Da    PI: 9.7485
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00043338001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP235.52.6e-114896154
                  AP2  1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkle 54
                         s+ykGV  ++++g W A+I+       +kr++lg+f +  eAa a++ a  kl+
  GSBRNA2T00043338001 48 SKYKGVVEHHRNGHWGAQIYID-----HKRIWLGTFKSSVEAAMAYDSASIKLR 96
                         89****99999*******9993.....4*********************99997 PP
2B389.33e-28179273184
                          EEEE-..-HHHHTT-EE--HHH.HTT........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                          f k ltpsdv+k++rlv+pk++a ++        +g+  e++++++ d++ r+W+++++y+ +s+++v+t+GWk+Fvk+++Lke+D++vF
  GSBRNA2T00043338001 179 FRKGLTPSDVGKLNRLVIPKRHAVKYlpfinereEGEIVEDVEVVFFDKTMRQWKFRYCYWTSSQSFVFTSGWKRFVKEKNLKERDVIVF 268
                          7899*************************998885566699************************************************* PP

                          E...E CS
                   B3  83 k...l 84 
                          +   l
  GSBRNA2T00043338001 269 YrcdL 273
                          *4443 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541711.57E-1348108IPR016177DNA-binding domain
CDDcd000181.05E-2048107No hitNo description
PfamPF008473.8E-74896IPR001471AP2/ERF domain
PROSITE profilePS5103217.00349107IPR001471AP2/ERF domain
SMARTSM003803.0E-1549113IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.102.9E-1449107IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.2E-31175284IPR015300DNA-binding pseudobarrel domain
CDDcd100176.23E-25178270No hitNo description
SuperFamilySSF1019362.35E-28178284IPR015300DNA-binding pseudobarrel domain
PfamPF023621.6E-25179276IPR003340B3 DNA binding domain
SMARTSM010198.4E-19179289IPR003340B3 DNA binding domain
PROSITE profilePS5086313.056179289IPR003340B3 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: 326 aa     Download sequence    Send to blast
MGICNQMTET STSSNPLLPL KKRKRPVDDT TDNVLAVATK KVALLGNSKY KGVVEHHRNG  60
HWGAQIYIDH KRIWLGTFKS SVEAAMAYDS ASIKLRSFDA TCHRNFPLNT STVHEPNFQK  120
GYTTEAVLEM IKDGSYQQKF KDYRSLPFHN VASINLVGSE RVQGDQDSTK YRLTCTELFR  180
KGLTPSDVGK LNRLVIPKRH AVKYLPFINE REEGEIVEDV EVVFFDKTMR QWKFRYCYWT  240
SSQSFVFTSG WKRFVKEKNL KERDVIVFYR CDLVGQSKNF LMIHVQYSSE GEVKTENFVN  300
SKLKEEETKS VDNKGGFMLF GVKIQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A3e-2717527210104DNA-binding protein RAV1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
11925LKKRKRP
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
PlantRegMapGSBRNA2T00043338001
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_009144943.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor At1g51120-like
SwissprotQ9C6P51e-133RAVL2_ARATH; AP2/ERF and B3 domain-containing transcription factor At1g50680
TrEMBLA0A078GWT60.0A0A078GWT6_BRANA; BnaA05g15710D protein
STRINGBra030476.1-P0.0(Brassica rapa)
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
AT1G50680.11e-125RAV 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]