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 Thecc1EG029136t1
Common NameTCM_029136
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 GRAS
Protein Properties Length: 583aa    MW: 64717.6 Da    PI: 6.7462
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG029136t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS269.11.4e-821995742374
              GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfs 94 
                       ++lL  cA+a+++g+l+++q+lL  l+elas++gd+++Rla + ++AL ++l++  s  +++  p + ++++ +    +l  f+evsP++ f 
  Thecc1EG029136t1 199 EQLLNPCATAITAGNLTRVQHLLYVLNELASSTGDSNHRLADHGLRALTHHLSS--S--SASAGPVTFASTEPKFFQRSLLKFYEVSPWFAFP 287
                       689**************************************************9..2..22334444444445555556666*********** PP

              GRAS  95 hltaNqaIleavege....ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg.........skeeleetgerLakfAeelg 173
                       + +aN  Il+ +++e    + +Hi+D+++s+G+QWp+Ll+aL+ R+ ++pp +RiT+v++ +++              +   +rL  fA++++
  Thecc1EG029136t1 288 NNVANASILQILAQEpdktRNLHILDIGVSHGVQWPTLLEALTRRSgGPPPLVRITVVAATAEKsqimdtpfsIGPPDHDFYSRLPGFAKSMN 380
                       *************999887889************************55666********98777888887776566678899*********** PP

              GRAS 174 vpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh...nsesFlerflealey 263
                       +++++n l  + l++l+++ ++ +pgE+l+V+ +++lh+l    ++++++r+e+Lk+++sl+Pk v+++e+++d+   n ++F ++f++ +ey
  Thecc1EG029136t1 381 ISLQINRLENHPLQNLNTKIIDNSPGETLIVCAQFRLHHLN---HNTPDQRTEFLKVLRSLEPKGVILSENNMDCscsNCGDFTTGFSRRVEY 470
                       *******9999*****************************8...77777788*******************9776446778************ PP

              GRAS 264 ysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveees 355
                        ++++ds+++ +    + r + Er++++ e+ ++++++g++    +e +ekW er++ +GF    ++e+a + a++llrk++ ++++rvee++
  Thecc1EG029136t1 471 LWKFLDSTSSAF----KGRESEERRVMEGEAAKALTNQGEM----NEGKEKWCERMRGVGFVGEVFGEDAIDGARALLRKYDsNWEMRVEEKN 555
                       ********7775....677777777778889********99....9************************************9999******* PP

              GRAS 356 gslvlgWkdrpLvsvSaWr 374
                       g++ l W+++p+ ++S W+
  Thecc1EG029136t1 556 GCVGLWWRGQPVSFCSLWK 574
                       ******************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098541.666172553IPR005202Transcription factor GRAS
PfamPF035144.9E-80199574IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0042446Biological Processhormone biosynthetic process
GO:2000032Biological Processregulation of secondary shoot formation
Sequence ? help Back to Top
Protein Sequence    Length: 583 aa     Download sequence    Send to blast
MIKQLYISQP FSLFTFFLCF KHSFQSTIMT LEEAEPNPTP DHILDWLEDS VSFLPSFLDD  60
PYSTGEINSY QWWDQDQGIG QDLINIGATA IDSPITAAAA VANTTNGSLI QSGSSFPNPG  120
LPPNSSKKRK PSDDQVPRAA QNRQQKKNQS SKINENEKGK AGLEEVVANK RSAGNKKNSN  180
KSSGNNCNNG NNKEGRWAEQ LLNPCATAIT AGNLTRVQHL LYVLNELASS TGDSNHRLAD  240
HGLRALTHHL SSSSASAGPV TFASTEPKFF QRSLLKFYEV SPWFAFPNNV ANASILQILA  300
QEPDKTRNLH ILDIGVSHGV QWPTLLEALT RRSGGPPPLV RITVVAATAE KSQIMDTPFS  360
IGPPDHDFYS RLPGFAKSMN ISLQINRLEN HPLQNLNTKI IDNSPGETLI VCAQFRLHHL  420
NHNTPDQRTE FLKVLRSLEP KGVILSENNM DCSCSNCGDF TTGFSRRVEY LWKFLDSTSS  480
AFKGRESEER RVMEGEAAKA LTNQGEMNEG KEKWCERMRG VGFVGEVFGE DAIDGARALL  540
RKYDSNWEMR VEEKNGCVGL WWRGQPVSFC SLWKLDIKVE ES*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_B3e-3919557484473Protein SHORT-ROOT
5b3h_B1e-3919557430419Protein SHORT-ROOT
5b3h_E1e-3919557430419Protein SHORT-ROOT
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator essential for Nod-factor-induced gene expression. Acts downstream of calcium spiking. May be a target of DMI3, a calcium/calmodulin-dependent protein kinase (CCaMK) (PubMed:15961669). Is essential for Nod factor-elicited expression of ERN1 (PubMed:23077241). {ECO:0000269|PubMed:15961669, ECO:0000269|PubMed:23077241}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not induced after treatment with Sinorhizobium meliloti. {ECO:0000269|PubMed:15961669}.
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_007024627.20.0PREDICTED: nodulation-signaling pathway 1 protein
SwissprotQ4VYC80.0NSP1_MEDTR; Nodulation-signaling pathway 1 protein
TrEMBLA0A061GJK70.0A0A061GJK7_THECC; Nodulation-signaling pathway 1 protein, putative
STRINGEOY272490.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM107472834
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G13840.11e-160GRAS family protein
Publications ? help Back to Top
  1. Cerri MR, et al.
    Medicago truncatula ERN transcription factors: regulatory interplay with NSP1/NSP2 GRAS factors and expression dynamics throughout rhizobial infection.
    Plant Physiol., 2012. 160(4): p. 2155-72
    [PMID:23077241]
  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. Tang H, et al.
    An improved genome release (version Mt4.0) for the model legume Medicago truncatula.
    BMC Genomics, 2014. 15: p. 312
    [PMID:24767513]