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 RrC10185_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 B3
Protein Properties Length: 256aa    MW: 29061.5 Da    PI: 9.6868
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC10185_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B31047.8e-33100203199
                  EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                  f+k+ tpsdv+k++rlv+pk++ae+h     ++++ +++ l +ed +g++W+++++y+++s++yvltkGW++Fvk+++L++gD+v F++++ ++++l+
  RrC10185_p1 100 FEKAVTPSDVGKLNRLVIPKHHAEKHfplppSNVSVKGVLLNFEDVTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSDGQDQQLY 197
                  89*************************9999888889***************************************************9877999999 PP

                  EEEE-S CS
           B3  94 vkvfrk 99 
                  +++ ++
  RrC10185_p1 198 IGWKSR 203
                  999776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.730.104.0E-7130IPR001471AP2/ERF domain
PROSITE profilePS5103210.52129IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.5E-4192206IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.16E-3298206IPR015300DNA-binding pseudobarrel domain
CDDcd100174.22E-2899191No hitNo description
SMARTSM010193.6E-26100204IPR003340B3 DNA binding domain
PfamPF023621.7E-29100203IPR003340B3 DNA binding domain
PROSITE profilePS5086314.438100204IPR003340B3 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: 256 aa     Download sequence    Send to blast
TFNEEDEAAR SYDVAVYRFR GRDAVTNFKE ARLDDGEVEF LNSHSKAEIV DMLRKHTYSE  60
ELEQSKRRRN GNGSTARALT TSVNGDCVST TEFRSAEALF EKAVTPSDVG KLNRLVIPKH  120
HAEKHFPLPP SNVSVKGVLL NFEDVTGKVW RFRYSYWNSS QSYVLTKGWS RFVKEKNLRA  180
GDVVSFSRSD GQDQQLYIGW KSRSGPDVET GRVLRLFGVN ISPESSRNDV VGNKRVNDTE  240
MLSLVCSKKQ RIFHAS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-759621010124DNA-binding protein RAV1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtBinds specifically to bipartite recognition sequences composed of two unrelated motifs, 5'-CAACA-3' and 5'-CACCTG-3'. May function as negative regulator of plant growth and development. {ECO:0000269|PubMed:15040885, ECO:0000269|PubMed:9862967}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by brassinosteroid and zeatin. {ECO:0000269|PubMed:15040885}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3530750.0AK353075.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-20-J24.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018442582.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor RAV1
RefseqXP_018442711.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor RAV1
SwissprotQ9ZWM91e-166RAV1_ARATH; AP2/ERF and B3 domain-containing transcription factor RAV1
TrEMBLA0A3P5YPI21e-179A0A3P5YPI2_BRACM; Uncharacterized protein
TrEMBLM4DTH81e-179M4DTH8_BRARP; Uncharacterized protein
STRINGBra019821.1-P1e-179(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM84827121
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G13260.11e-169related to ABI3/VP1 1
Publications ? help Back to Top
  1. Matías-Hernández L,Aguilar-Jaramillo AE,Marín-González E,Suárez-López P,Pelaz S
    RAV genes: regulation of floral induction and beyond.
    Ann. Bot., 2014. 114(7): p. 1459-70
    [PMID:24812253]
  2. Mittal A,Jiang Y,Ritchie GL,Burke JJ,Rock CD
    AtRAV1 and AtRAV2 overexpression in cotton increases fiber length differentially under drought stress and delays flowering.
    Plant Sci., 2015. 241: p. 78-95
    [PMID:26706061]
  3. Huang Y,Feng CZ,Ye Q,Wu WH,Chen YF
    Arabidopsis WRKY6 Transcription Factor Acts as a Positive Regulator of Abscisic Acid Signaling during Seed Germination and Early Seedling Development.
    PLoS Genet., 2016. 12(2): p. e1005833
    [PMID:26829043]
  4. Zhao Y, et al.
    ABA receptor PYL9 promotes drought resistance and leaf senescence.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(7): p. 1949-54
    [PMID:26831097]