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 Thecc1EG002319t1
Common NameTCM_002319
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: 570aa    MW: 63858.3 Da    PI: 5.7263
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG002319t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS455.53.4e-1391995691374
              GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkf 93 
                       l+++L++cA+avs++dl + q+l+ +l+ ++s +g+p+qRl ay++e+L arla+s+s++ykal+++e +   s++ l+++++++ev+P++kf
  Thecc1EG002319t1 199 LKQVLVSCAKAVSDNDLMMSQWLMDELRRMVSVSGEPIQRLGAYMLEGLVARLASSGSSIYKALRCKEPA---SADLLSYMHILYEVCPYFKF 288
                       5799*****************************************************************9...9******************* PP

              GRAS  94 shltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnvlvak 184
                       +++ aN aI ea++ e+rvHiiDf+i+qG QW++L+qa+a+Rp+gpp++ iTg+++++s   +   l+ +g+rL+k+Ae+++vpfef++ +a 
  Thecc1EG002319t1 289 GYMSANGAIAEAMKDEDRVHIIDFQIGQGSQWITLIQAFAARPGGPPHICITGIDDSTSAyaRGGGLNIVGKRLSKLAEHFKVPFEFHA-AAM 380
                       ********************************************************998899999************************.899 PP

              GRAS 185 rledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpr 277
                       +  +++ e+Lrv+pgEalaVn++++lh+++desvs+e++rd++L+lvkslsPkvv++veqe+++n+++F+ rfle+l+yy+a+f+s++++lpr
  Thecc1EG002319t1 381 SGCEVQQEHLRVRPGEALAVNFAFMLHHMPDESVSTENHRDRLLRLVKSLSPKVVTLVEQESNTNTAPFFPRFLETLNYYTAMFESIDVTLPR 473
                       999****************************************************************************************** PP

              GRAS 278 eseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsv 370
                       + +eri+vE+++l+r++vn++aceg er+erhe ++kWr+r+++aGF p+pls+ +++++k+ll+++ +  yr+ee++g+l+lgW++r Lv+ 
  Thecc1EG002319t1 474 DRKERINVEQHCLARDVVNIIACEGPERVERHELMGKWRSRFRMAGFCPYPLSSLVNATIKTLLENYCD-KYRLEERDGALFLGWMNRDLVAS 565
                       *******************************************************************95.5********************** PP

              GRAS 371 SaWr 374
                       +aW+
  Thecc1EG002319t1 566 CAWK 569
                       ***8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098569.205173550IPR005202Transcription factor GRAS
PfamPF035141.2E-136199569IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007165Biological Processsignal transduction
GO:0009640Biological Processphotomorphogenesis
GO:0005737Cellular Componentcytoplasm
GO:0004871Molecular Functionsignal transducer activity
Sequence ? help Back to Top
Protein Sequence    Length: 570 aa     Download sequence    Send to blast
MFQNNILATL ESFDFLSPLQ RDRETVEVNY PSVQASQQYR SAVMASRLYH QVKQEVEPYC  60
LPQFPTIDRS LCYSDSSQGS HFSVKNSSEL YCTLESSSAN GSYTVYNSSS TVSFSPNGSP  120
MSQQESQSYP SDLHHSPDNT YGSPISGSCI TDDVSDLRHK LRELETVMLG PDSDIIDSTT  180
SPDMGSWNLV MDAISRGDLK QVLVSCAKAV SDNDLMMSQW LMDELRRMVS VSGEPIQRLG  240
AYMLEGLVAR LASSGSSIYK ALRCKEPASA DLLSYMHILY EVCPYFKFGY MSANGAIAEA  300
MKDEDRVHII DFQIGQGSQW ITLIQAFAAR PGGPPHICIT GIDDSTSAYA RGGGLNIVGK  360
RLSKLAEHFK VPFEFHAAAM SGCEVQQEHL RVRPGEALAV NFAFMLHHMP DESVSTENHR  420
DRLLRLVKSL SPKVVTLVEQ ESNTNTAPFF PRFLETLNYY TAMFESIDVT LPRDRKERIN  480
VEQHCLARDV VNIIACEGPE RVERHELMGK WRSRFRMAGF CPYPLSSLVN ATIKTLLENY  540
CDKYRLEERD GALFLGWMNR DLVASCAWK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A4e-6220656826378Protein SCARECROW
5b3h_A4e-6220656825377Protein SCARECROW
5b3h_D4e-6220656825377Protein SCARECROW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in phytochrome A (phyA) signal transduction. {ECO:0000269|PubMed:10817761}.
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_007049286.10.0PREDICTED: scarecrow-like transcription factor PAT1
RefseqXP_007049287.10.0PREDICTED: scarecrow-like transcription factor PAT1
RefseqXP_017982760.10.0PREDICTED: scarecrow-like transcription factor PAT1
SwissprotQ9LDL70.0PAT1_ARATH; Scarecrow-like transcription factor PAT1
TrEMBLA0A061DLX80.0A0A061DLX8_THECC; GRAS family transcription factor isoform 1
STRINGEOX934420.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM62128141
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G48150.20.0GRAS 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. Heyman J, et al.
    The heterodimeric transcription factor complex ERF115-PAT1 grants regeneration competence.
    Nat Plants, 2016. 2(11): p. 16165
    [PMID:27797356]