PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Thecc1EG037975t1
Common NameTCM_037975
Organism
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 GRAS
Protein Properties Length: 549aa    MW: 60414.5 Da    PI: 5.8918
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG037975t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS416.23e-1271595231373
              GRAS   1 lvelLlecAeavssgdlelaqalLarlsel..aspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPil 91 
                       lv+ L+ cAe+v+ gdl la++l+  ++ l  + ++   + ++a +f  AL+ r+++        +   + +  +  e+   ++ f+e++P+l
  Thecc1EG037975t1 159 LVHMLMMCAECVQRGDLPLATSLIDDMQRLlmRVNTVCGIGKVAGHFIDALSCRIFQ-------GFGGGPVNGGSAYENEILYHHFYEACPYL 244
                       689*************************99655555589*****************9.......333333333346777788999******** PP

              GRAS  92 kfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvak 184
                       kf+h+taNqaIlea++g+++vH++Df++++GlQWpaL+qaLa Rp+gpp lR+Tg+g+p+++ +++l+e+g rLa++A++++v+f f+ ++a+
  Thecc1EG037975t1 245 KFAHFTANQAILEAFDGHDCVHVVDFNLMHGLQWPALIQALALRPGGPPLLRLTGIGPPSPDGRDSLREIGLRLAELARSVNVRFTFRGVAAS 337
                       ********************************************************************************************* PP

              GRAS 185 rledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpr 277
                       rled+++++L+v+p+Ea+aVn+++qlhrll  + + +s++++vL+ ++sl+Pk+++vveqea+hn++ Fl+rf+eal+yys++fdslea    
  Thecc1EG037975t1 338 RLEDVKPWMLQVNPKEAVAVNSIMQLHRLLGADPTRNSPIQTVLSWIRSLNPKIMTVVEQEANHNQPGFLDRFTEALYYYSTMFDSLEAC--- 427
                       ***************************************************************************************998... PP

              GRAS 278 eseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsv 370
                       + + ++ + + +++rei nvv+ceg++r+erhe l+kWr rl+ aGF+p++l+++a kqa++ll  ++ +gy vee++g+l+lgW++rpL+s+
  Thecc1EG037975t1 428 TVQPEKALAEIYIQREIANVVSCEGSARVERHEPLAKWRTRLNGAGFRPLHLGSNAFKQASMLLTLFSAEGYLVEENEGCLTLGWHSRPLISA 520
                       578888888999********************************************************************************* PP

              GRAS 371 SaW 373
                       SaW
  Thecc1EG037975t1 521 SAW 523
                       *** PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF120417.0E-283399IPR021914Transcriptional factor DELLA, N-terminal
SMARTSM011291.3E-1633105No hitNo description
PROSITE profilePS5098563.365133504IPR005202Transcription factor GRAS
PfamPF035141.0E-124159523IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
Sequence ? help Back to Top
Protein Sequence    Length: 549 aa     Download sequence    Send to blast
MVPYDSATSA GSSSGSSSSS SYKPPQQQQQ DIDRLLAGAG YKVRSSELRQ VAQRLERLEI  60
AMVNSPADFF HLASDAIHRN PSDLASWVDS LLSECTQPPT CPSEFIMDPV TNQAVVNNAW  120
TTTEPHTPQV HQNISFEQQS LNHQLTVVTA MEEDSGIRLV HMLMMCAECV QRGDLPLATS  180
LIDDMQRLLM RVNTVCGIGK VAGHFIDALS CRIFQGFGGG PVNGGSAYEN EILYHHFYEA  240
CPYLKFAHFT ANQAILEAFD GHDCVHVVDF NLMHGLQWPA LIQALALRPG GPPLLRLTGI  300
GPPSPDGRDS LREIGLRLAE LARSVNVRFT FRGVAASRLE DVKPWMLQVN PKEAVAVNSI  360
MQLHRLLGAD PTRNSPIQTV LSWIRSLNPK IMTVVEQEAN HNQPGFLDRF TEALYYYSTM  420
FDSLEACTVQ PEKALAEIYI QREIANVVSC EGSARVERHE PLAKWRTRLN GAGFRPLHLG  480
SNAFKQASML LTLFSAEGYL VEENEGCLTL GWHSRPLISA SAWHAVPDAA AEIPAWDGSS  540
TIISRAES*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_A1e-5815252311377Protein SCARECROW
5b3h_D1e-5815252311377Protein SCARECROW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator that acts as a repressor of the gibberellin (GA) signaling pathway. Transcription coactivator of the zinc finger transcription factors GAF1/IDD2 and ENY/IDD1 in regulation of gibberellin homeostasis and signaling (PubMed:25035403). No effect of the BOI proteins on its stability. Probably acts by participating in large multiprotein complexes that repress transcription of GA-inducible genes. Positively regulates XERICO expression. In contrast to RGA, it is less sensitive to GA. Its activity is probably regulated by other phytohormones such as auxin and ethylene. {ECO:0000269|PubMed:11487693, ECO:0000269|PubMed:11606551, ECO:0000269|PubMed:11606552, ECO:0000269|PubMed:14973286, ECO:0000269|PubMed:15128937, ECO:0000269|PubMed:16034591, ECO:0000269|PubMed:17933900, ECO:0000269|PubMed:25035403, ECO:0000269|PubMed:9389651}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007013315.20.0PREDICTED: DELLA protein SLR1
SwissprotQ9LQT81e-161GAI_ARATH; DELLA protein GAI
TrEMBLA0A061GUW70.0A0A061GUW7_THECC; GAI/RGA-like protein
STRINGEOY309340.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM160451015
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G14920.11e-144GRAS family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. 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]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. Gallego-Giraldo C, et al.
    Role of the gibberellin receptors GID1 during fruit-set in Arabidopsis.
    Plant J., 2014. 79(6): p. 1020-1032
    [PMID:24961590]
  5. Fukazawa J, et al.
    DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2920-38
    [PMID:25035403]
  6. MarĂ­n-de la Rosa N, et al.
    Genome Wide Binding Site Analysis Reveals Transcriptional Coactivation of Cytokinin-Responsive Genes by DELLA Proteins.
    PLoS Genet., 2015. 11(7): p. e1005337
    [PMID:26134422]
  7. Shi H,Wei Y,Wang Q,Reiter RJ,He C
    Melatonin mediates the stabilization of DELLA proteins to repress the floral transition in Arabidopsis.
    J. Pineal Res., 2016. 60(3): p. 373-9
    [PMID:26887824]
  8. Lee SA, et al.
    Interplay between ABA and GA Modulates the Timing of Asymmetric Cell Divisions in the Arabidopsis Root Ground Tissue.
    Mol Plant, 2016. 9(6): p. 870-84
    [PMID:26970019]
  9. Qu J,Kang SG,Hah C,Jang JC
    Molecular and cellular characterization of GA-Stimulated Transcripts GASA4 and GASA6 in Arabidopsis thaliana.
    Plant Sci., 2016. 246: p. 1-10
    [PMID:26993231]
  10. Shahnejat-Bushehri S,Nobmann B,Devi Allu A,Balazadeh S
    JUB1 suppresses Pseudomonas syringae-induced defense responses through accumulation of DELLA proteins.
    Plant Signal Behav, 2016. 11(6): p. e1181245
    [PMID:27159137]
  11. Shahnejat-Bushehri S,Tarkowska D,Sakuraba Y,Balazadeh S
    Arabidopsis NAC transcription factor JUB1 regulates GA/BR metabolism and signalling.
    Nat Plants, 2016. 2: p. 16013
    [PMID:27249348]
  12. Wang H, et al.
    The DELLA-CONSTANS Transcription Factor Cascade Integrates Gibberellic Acid and Photoperiod Signaling to Regulate Flowering.
    Plant Physiol., 2016. 172(1): p. 479-88
    [PMID:27406167]
  13. Li W,Wang H,Yu D
    Arabidopsis WRKY Transcription Factors WRKY12 and WRKY13 Oppositely Regulate Flowering under Short-Day Conditions.
    Mol Plant, 2016. 9(11): p. 1492-1503
    [PMID:27592586]
  14. Liu B,De Storme N,Geelen D
    Gibberellin Induces Diploid Pollen Formation by Interfering with Meiotic Cytokinesis.
    Plant Physiol., 2017. 173(1): p. 338-353
    [PMID:27621423]
  15. Matsuoka K, et al.
    Differential Cellular Control by Cotyledon-Derived Phytohormones Involved in Graft Reunion of Arabidopsis Hypocotyls.
    Plant Cell Physiol., 2016. 57(12): p. 2620-2631
    [PMID:27986917]
  16. Zentella R, et al.
    The Arabidopsis O-fucosyltransferase SPINDLY activates nuclear growth repressor DELLA.
    Nat. Chem. Biol., 2017. 13(5): p. 479-485
    [PMID:28244988]
  17. Zhang Y, et al.
    GA-DELLA pathway is involved in regulation of nitrogen deficiency-induced anthocyanin accumulation.
    Plant Cell Rep., 2017. 36(4): p. 557-569
    [PMID:28275852]
  18. Zhang L,Chen L,Yu D
    Transcription Factor WRKY75 Interacts with DELLA Proteins to Affect Flowering.
    Plant Physiol., 2018. 176(1): p. 790-803
    [PMID:29133369]
  19. Nelson SK,Ariizumi T,Steber CM
    Biology in the Dry Seed: Transcriptome Changes Associated with Dry Seed Dormancy and Dormancy Loss in the Arabidopsis GA-Insensitive sleepy1-2 Mutant.
    Front Plant Sci, 2017. 8: p. 2158
    [PMID:29312402]
  20. Liu B,De Storme N,Geelen D
    Cold-Induced Male Meiotic Restitution in Arabidopsis thaliana Is Not Mediated by GA-DELLA Signaling.
    Front Plant Sci, 2018. 9: p. 91
    [PMID:29459879]
  21. Zhang Y, et al.
    DELLA proteins negatively regulate dark-induced senescence and chlorophyll degradation in Arabidopsis through interaction with the transcription factor WRKY6.
    Plant Cell Rep., 2018. 37(7): p. 981-992
    [PMID:29574486]
  22. Felipo-Benavent A, et al.
    Regulation of xylem fiber differentiation by gibberellins through DELLA-KNAT1 interaction.
    Development, 2019.
    [PMID:30389856]
  23. Wright DA, et al.
    Recovery of YAC-end sequences through complementation of an Escherichia coli pyrF mutation.
    Nucleic Acids Res., 1997. 25(13): p. 2679-80
    [PMID:9185581]