PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Carubv10009612m
Common NameCARUB_v10009612mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family RAV
Protein Properties Length: 348aa    MW: 38782.2 Da    PI: 9.5636
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10009612mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP240.76.1e-1362110155
              AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                      s+ykGV   + +grW A+I++      ++r++lg+f  ++eAa+a++ a  +++g
  Carubv10009612m  62 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARAYDVAVHRFRG 110
                      89****9888.8*********3.....5**********99***********9998 PP
2B3102.42.6e-32190293199
                      EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                      f+k+ tpsdv+k++rlv+pk++ae+h      +++ +++ l +ed +g++W+++++y+++s++yvltkGW++Fvk+++L++gD+v F++++ ++
  Carubv10009612m 190 FEKAVTPSDVGKLNRLVIPKHHAEKHfplpsTSVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQD 283
                      89*************************99997778899**************************************************987799 PP

                      E..EEEEE-S CS
               B3  90 felvvkvfrk 99 
                      ++l++++ ++
  Carubv10009612m 284 QQLYIGWKSR 293
                      9999999776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541713.07E-1762118IPR016177DNA-binding domain
CDDcd000183.05E-2662120No hitNo description
PfamPF008475.0E-862110IPR001471AP2/ERF domain
PROSITE profilePS5103220.19263118IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.1E-2063119IPR001471AP2/ERF domain
SMARTSM003803.7E-2863124IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.105.8E-43182296IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019368.63E-34185296IPR015300DNA-binding pseudobarrel domain
CDDcd100171.58E-29188281No hitNo description
PROSITE profilePS5086314.565190294IPR003340B3 DNA binding domain
PfamPF023621.8E-29190293IPR003340B3 DNA binding domain
SMARTSM010192.1E-26190294IPR003340B3 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: 348 aa     Download sequence    Send to blast
MEVSSVDEST TSTGSICETP AISPAKNSSS VGNNLYRMGS GSSVVLDSEN GIEAESRKLP  60
SSKYKGVVPQ PNGRWGAQIY EKHQRVWLGT FNEEDEAARA YDVAVHRFRG RDAVTNFKDV  120
RMDDDEVEFL NSHSKSEIVD MLRKHTYNEE LEQSKRRRNG SGNTVRTMLT SGLSNDGAST  180
TEFRSAEPLF EKAVTPSDVG KLNRLVIPKH HAEKHFPLPS TSVSVKGVLL NFEDVNGKVW  240
RFRYSYWNSS QSYVLTKGWS RFVKEKNLRA GDVVSFSRSN GQDQQLYIGW KSRSGSDLEP  300
GQVLRLFGVN ISPASSRNDV VGNKRSVNDT EMLSLVCSKK QRIFHAS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A8e-7618629910123DNA-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
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10009612m
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006305243.10.0AP2/ERF and B3 domain-containing transcription factor RAV1
SwissprotQ9ZWM90.0RAV1_ARATH; AP2/ERF and B3 domain-containing transcription factor RAV1
TrEMBLR0GQT60.0R0GQT6_9BRAS; Uncharacterized protein
STRINGXP_006305243.10.0(Capsella rubella)
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]