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 Thecc1EG011862t1
Common NameTCM_011862
Organism
Theobroma cacao
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma
Family RAV
Protein Properties Length: 359aa    MW: 39939.1 Da    PI: 8.8008
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG011862t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP2445.6e-1463111155
               AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                       s+ykGV   + +grW A+I++      ++r++lg+f  ++eAaka++ a+++++g
  Thecc1EG011862t1  63 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAAKAYDIAAQRFRG 111
                       89****9888.8*********3.....5**********99*************98 PP
2B31001.4e-31192289193
                       EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                       f+k+ tpsdv+k++rlv+pk++ae++     g+ + +++ l +ed +g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F+++   
  Thecc1EG011862t1 192 FEKAVTPSDVGKLNRLVIPKQHAEKYfplqsGSASSKGVLLNFEDVTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDIVSFQRSTGL 284
                       89****************************97788899**************************************************76554 PP

                       EE..E CS
                B3  89 efelv 93 
                       e++l+
  Thecc1EG011862t1 285 EKQLY 289
                       44455 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541714.71E-1763120IPR016177DNA-binding domain
PfamPF008478.5E-963111IPR001471AP2/ERF domain
CDDcd000187.83E-2663121No hitNo description
Gene3DG3DSA:3.30.730.104.6E-2064120IPR001471AP2/ERF domain
PROSITE profilePS5103220.12664119IPR001471AP2/ERF domain
SMARTSM003802.4E-2964125IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.8E-42186296IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.19E-31190295IPR015300DNA-binding pseudobarrel domain
CDDcd100177.37E-28191281No hitNo description
PROSITE profilePS5086314.311192294IPR003340B3 DNA binding domain
PfamPF023626.8E-29192292IPR003340B3 DNA binding domain
SMARTSM010191.8E-24192296IPR003340B3 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: 359 aa     Download sequence    Send to blast
MDGSCIDEST TSGDSISISP SNLSPLPPAT KSPDSLCRVG SGASVIVDSE AGVEAESRKL  60
PSSKYKGVVP QPNGRWGAQI YEKHQRVWLG TFNEEDEAAK AYDIAAQRFR GRDAVTNFKH  120
LRETEEDDIE MAFLNSHSKA EIVDMLRKHT YNDELEQSRR SYGFDGNGKR VVRHDGGFGS  180
FGLELKAREQ LFEKAVTPSD VGKLNRLVIP KQHAEKYFPL QSGSASSKGV LLNFEDVTGK  240
VWRFRYSYWN SSQSYVLTKG WSRFVKEKNL KAGDIVSFQR STGLEKQLYI DWKTRTGLGS  300
GLENPVGPVQ MVRLFGVNIF KIPGSENVGI VGCIGKRTRE MELLELECSK KQRVIDAL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A5e-6018929711119DNA-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
GenBankKJ8018190.0KJ801819.1 Gossypium hirsutum RAV protein (RAV1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007046304.20.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor RAV1
SwissprotQ9ZWM91e-156RAV1_ARATH; AP2/ERF and B3 domain-containing transcription factor RAV1
TrEMBLA0A061EB300.0A0A061EB30_THECC; AP2 domain class transcription factor
STRINGEOY021360.0(Theobroma cacao)
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
AT1G68840.21e-151related to ABI3/VP1 2
Publications ? help Back to Top
  1. Motamayor JC, et al.
    The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color.
    Genome Biol., 2013. 14(6): p. r53
    [PMID:23731509]
  2. 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]
  3. 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]
  4. 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]
  5. 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]