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 XP_009148531.1
Organism
Brassica rapa
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: 341aa    MW: 38088.5 Da    PI: 9.4019
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009148531.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP237.46.4e-1258106155
             AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                     s+ykGV   + +grW A+I++      ++r++lg+f  ++eAa+ ++ a  +++g
  XP_009148531.1  58 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARSYDVAVYRFRG 106
                     89****9888.8*********3.....5**********99***********9998 PP
2B3101.16.5e-32185288199
                     EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                     f+k+ tpsdv+k++rlv+pk++ae+h     ++++ +++ l +ed +g++W+++++y+++s++yvltkGW++Fvk+++L +gD+v F++++ +++
  XP_009148531.1 185 FEKAVTPSDVGKLNRLVIPKHHAEKHfplpsSNVSVKGVLLNFEDVTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLLAGDVVSFSRSEGQDQ 279
                     89****************************9888889***************************************************9887999 PP

                     ..EEEEE-S CS
              B3  91 elvvkvfrk 99 
                     +l++++ ++
  XP_009148531.1 280 QLYIGWKSR 288
                     999999776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000182.39E-2558116No hitNo description
SuperFamilySSF541712.42E-1658114IPR016177DNA-binding domain
PfamPF008473.4E-758106IPR001471AP2/ERF domain
PROSITE profilePS5103220.25759114IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.106.2E-2059115IPR001471AP2/ERF domain
SMARTSM003807.9E-2859120IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.107.3E-41177291IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.54E-32183291IPR015300DNA-binding pseudobarrel domain
CDDcd100172.20E-27184276No hitNo description
PfamPF023626.6E-29185288IPR003340B3 DNA binding domain
SMARTSM010193.2E-25185289IPR003340B3 DNA binding domain
PROSITE profilePS5086314.057185289IPR003340B3 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: 341 aa     Download sequence    Send to blast
MEVSSVDEST TSTGSICETP AMTSAKSSVN LHRMGSGSSV VLDSENGVEA ESRKLPSSKY  60
KGVVPQPNGR WGAQIYEKHQ RVWLGTFNEE DEAARSYDVA VYRFRGRDAV TNFKEARLDD  120
GEVEFLSSHS KAEIVDMLRK HTYSEELEQS KRRRNGNGNT ARTLTSSLNG DGVSTTEFRS  180
AEALFEKAVT PSDVGKLNRL VIPKHHAEKH FPLPSSNVSV KGVLLNFEDV TGKVWRFRYS  240
YWNSSQSYVL TKGWSRFVKE KNLLAGDVVS FSRSEGQDQQ LYIGWKSRSG PDVETGRVLR  300
LFGVNISPES SRTEVVGSKR VNDTEMLSLV CSKKQRIFHA S
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A4e-7418129510124DNA-binding protein RAV1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.172270.0leaf| root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in all tissues examined: Roots, rosette leaves, cauline leaves, inflorescence stems, flowers and siliques. Highest expression in roots and rosette leaves. Very low expression in flowers. {ECO:0000269|PubMed:9862967}.
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
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009148531.1
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_009148531.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor RAV1
SwissprotQ9ZWM90.0RAV1_ARATH; AP2/ERF and B3 domain-containing transcription factor RAV1
TrEMBLA0A3P5YPI20.0A0A3P5YPI2_BRACM; Uncharacterized protein
TrEMBLM4DTH80.0M4DTH8_BRARP; Uncharacterized protein
STRINGBra019821.1-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]