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 RrC4678_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family RAV
Protein Properties Length: 263aa    MW: 30328.6 Da    PI: 9.4706
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC4678_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP230.68.4e-1056103154
         AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkle 54 
                 ++ykGV ++  +g W A+I++      +kr++lg f +a eAa  ++ a  kl+
  RrC4678_p1  56 TKYKGVVQHQ-NGHWGAQIYVD-----HKRIWLGPFKSAAEAAMGYDSASIKLR 103
                 69*****999.8*********3.....4********************999987 PP
2B372.55.4e-23180263176
                 EEEE-..-HHHHTT-EE--HHH.HTT........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--T CS
          B3   1 ffkvltpsdvlksgrlvlpkkfaeeh........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLke 76 
                 f+k+lt sdv+k++rlv+pkk+a ++        +g+  e+++++++d++ rsW++k++y+ +s+++v+t+GW  Fvk++ Lke
  RrC4678_p1 180 FQKELTASDVGKLNRLVIPKKYAVKYlpfisereEGEVVEDVEVVFYDREMRSWTFKYCYWTSSQSFVFTRGWIAFVKEKSLKE 263
                 99****************************99986666799*****************************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000184.38E-2156116No hitNo description
SuperFamilySSF541711.44E-1357116IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.107.0E-1457114IPR001471AP2/ERF domain
SMARTSM003801.0E-1357120IPR001471AP2/ERF domain
PROSITE profilePS5103216.21257114IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.4E-26175263IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019369.68E-23178263IPR015300DNA-binding pseudobarrel domain
CDDcd100171.71E-19179263No hitNo description
PROSITE profilePS5086312.069180263IPR003340B3 DNA binding domain
SMARTSM010191.0E-4180263IPR003340B3 DNA binding domain
PfamPF023623.7E-20180263IPR003340B3 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: 263 aa     Download sequence    Send to blast
MFLVSSVIPM DVSKSETLNT SDSYLPVKKR MRLNEPPTDK ALVSTAIDKV SFSNSTKYKG  60
VVQHQNGHWG AQIYVDHKRI WLGPFKSAAE AAMGYDSASI KLRSFDANSY RNFPWSDLTV  120
HEPVFQKGYT TEAVLNMIKD GSYPREFKEF LKNRSQVVMG SKQSLRGEES NKCFSCTQLF  180
QKELTASDVG KLNRLVIPKK YAVKYLPFIS EREEGEVVED VEVVFYDREM RSWTFKYCYW  240
TSSQSFVFTR GWIAFVKEKS LKE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-201792621393DNA-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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893010.0AC189301.2 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
SwissprotQ9C6881e-124RAVL3_ARATH; AP2/ERF and B3 domain-containing transcription factor At1g51120
TrEMBLA0A3P6FPW31e-176A0A3P6FPW3_BRAOL; Uncharacterized protein
STRINGBra018854.1-P1e-168(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
AT1G51120.11e-117RAV family protein