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 GSBRNA2T00021160001
Common NameGSBRNA2T00021160001
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: 338aa    MW: 38596.7 Da    PI: 8.6308
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00021160001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP234.16.7e-114794154
                  AP2  1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkle 54
                         ++ykGV   + +grW A+I++      +kr++lg+f +a eAa a + a  kl+
  GSBRNA2T00021160001 47 TKYKGVVPQP-NGRWGAQIYVD-----HKRIWLGTFSSAAEAAMAFDSANIKLR 94
                         69****9888.8*********3.....4*******************9988887 PP
2B385.64.4e-27175270184
                          EEEE-..-HHHHTT-EE--HHH.HTT............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT- CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegD 78 
                          f k+ltpsdv+k++rlv+pkk+a ++            +g+  e+++++++d+  r W+++++y+++s+++v+t+GW++Fvk++ Lke+D
  GSBRNA2T00021160001 175 FRKELTPSDVGKLNRLVIPKKYAVRYlpllrddqkereEGEIVEDVEVVFYDRAMRPWKFRYCYWRSSQSFVFTRGWNGFVKEKSLKEKD 264
                          89*****************************98776664444599********************************************* PP

                          EEEEEE CS
                   B3  79 fvvFkl 84 
                           +vF+ 
  GSBRNA2T00021160001 265 AIVFYT 270
                          ****93 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000181.95E-2147107No hitNo description
PROSITE profilePS5103217.02948105IPR001471AP2/ERF domain
SuperFamilySSF541716.54E-1448106IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.103.5E-1548105IPR001471AP2/ERF domain
SMARTSM003801.0E-1748111IPR001471AP2/ERF domain
PRINTSPR003676.0E-54960IPR001471AP2/ERF domain
PRINTSPR003676.0E-56985IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.102.6E-31166288IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.83E-26173271IPR015300DNA-binding pseudobarrel domain
CDDcd100172.06E-24174269No hitNo description
PfamPF023621.9E-24175270IPR003340B3 DNA binding domain
PROSITE profilePS5086312.294175292IPR003340B3 DNA binding domain
SMARTSM010193.8E-18175282IPR003340B3 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: 338 aa     Download sequence    Send to blast
MDIAKSKASN TSDSYLPPKK RMRLSEPPTD KAPVSTAIKR VSFSDGTKYK GVVPQPNGRW  60
GAQIYVDHKR IWLGTFSSAA EAAMAFDSAN IKLRSFDTNS ERNFPWSDLT VQEPVFQNGY  120
TTEAVLNMIK DGSYQREFID FLKTRSQVVI GGRYNMVGPK EDQESKKGFS CTELFRKELT  180
PSDVGKLNRL VIPKKYAVRY LPLLRDDQKE REEGEIVEDV EVVFYDRAMR PWKFRYCYWR  240
SSQSFVFTRG WNGFVKEKSL KEKDAIVFYT CDVPTLEGQR KKFLMIDVHC SSDEGYAVCD  300
EEVNETVHNS SEGGVKTEET KSVENKGGFM LFGVRIQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A3e-23173271696B3 domain-containing transcription factor NGA1
5os9_B3e-23173271696B3 domain-containing transcription factor NGA1
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
PlantRegMapGSBRNA2T00021160001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893018e-84AC189301.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB030D08, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018486600.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor At1g50680-like
RefseqXP_018487331.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor At1g50680-like
SwissprotQ9C6P51e-158RAVL2_ARATH; AP2/ERF and B3 domain-containing transcription factor At1g50680
TrEMBLA0A078GBU40.0A0A078GBU4_BRANA; BnaA06g02630D protein
STRINGBra018869.1-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-140RAV 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]