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 RrC2558_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: 344aa    MW: 38380.8 Da    PI: 9.5635
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC2558_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP237.55.9e-1262110155
         AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                 s+ykGV   + +grW A+I++      ++r++lg+f  ++eAa+ ++ a  +++g
  RrC2558_p1  62 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARSYDVAVHRFRG 110
                 89****9888.8*********3.....5**********99***********9998 PP
2B3100.41.1e-31186290199
                 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++      ++++ +++ l +ed +g++W+++++y+++s++yvltkGW++Fvk+++L++gD v F++++ ++++l+
  RrC2558_p1 186 FEKAVTPSDVGKLNRLVIPKHHAEKYfplppsSNVSVKGVLLNFEDVTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDLVSFSRSDGQDQQLY 284
                 89*************************99999778889***************************************************9877999999 PP

                 EEEE-S CS
          B3  94 vkvfrk 99 
                 +++ ++
  RrC2558_p1 285 IGWKSR 290
                 999776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008473.8E-762110IPR001471AP2/ERF domain
SuperFamilySSF541717.19E-1662119IPR016177DNA-binding domain
CDDcd000183.85E-2462120No hitNo description
Gene3DG3DSA:3.30.730.105.8E-1963119IPR001471AP2/ERF domain
PROSITE profilePS5103219.71763118IPR001471AP2/ERF domain
SMARTSM003801.5E-2563124IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.102.5E-40179295IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.58E-31182293IPR015300DNA-binding pseudobarrel domain
CDDcd100178.71E-28185278No hitNo description
PfamPF023628.4E-29186290IPR003340B3 DNA binding domain
SMARTSM010198.4E-26186291IPR003340B3 DNA binding domain
PROSITE profilePS5086314.24186291IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009741Biological Processresponse to brassinosteroid
GO:0009910Biological Processnegative regulation of flower development
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048366Biological Processleaf development
GO:0048527Biological Processlateral root development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 344 aa     Download sequence    Send to blast
MEMSSVDEST TSTGSICETP AITPSITSGK SSVNLHRMGS GSSVVLDSEN GAEAESRKLP  60
SSKYKGVVPQ PNGRWGAQIY EKHQRVWLGT FNEEDEAARS YDVAVHRFRG RDAVANFKDA  120
RLDDGEVEFL STHSKSEIVD MLRKHTYSEE LEQSKRRRDG DGNAVRSMTH NDGVSTTEFR  180
SAVSLFEKAV TPSDVGKLNR LVIPKHHAEK YFPLPPSSNV SVKGVLLNFE DVTGKVWRFR  240
YSYWNSSQSY VLTKGWSRFV KEKNLRAGDL VSFSRSDGQD QQLYIGWKSR SGSDVDASRV  300
LRLFGVNISP AGSRNDVVGN KRVVNDTEML SLVCSKKQRI FHAS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A9e-7318229810125DNA-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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00139DAPTransfer from AT1G13260Download
Motif logo
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
PlantRegMapRetrieveRetrieve
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_018433948.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor RAV1-like
RefseqXP_018433957.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor RAV1-like
SwissprotQ9ZWM90.0RAV1_ARATH; AP2/ERF and B3 domain-containing transcription factor RAV1
TrEMBLM4EDQ70.0M4EDQ7_BRARP; Uncharacterized protein
STRINGBra026917.1-P0.0(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
AT1G13260.10.0related 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]