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 Thecc1EG004872t1
Common NameTCM_004872
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 MYB_related
Protein Properties Length: 451aa    MW: 50475.4 Da    PI: 9.4818
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG004872t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding22.92e-07129171346
                       SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
   Myb_DNA-binding   3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                        WT+eE ++l d+++++  + +  Ia ++++ Rt +++k+r+++
  Thecc1EG004872t1 129 VWTKEETDQLFDLCERFDLR-FIVIADRFPTFRTVEELKDRYYS 171
                       6*******************.*********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF162823.2E-30102176IPR032563DAMP1, SANT/Myb-like domain
SMARTSM007173.0E-7126175IPR001005SANT/Myb domain
SuperFamilySSF466894.73E-6127177IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.1E-5129173IPR009057Homeodomain-like
CDDcd116584.40E-18130172No hitNo description
PfamPF054991.2E-6319381IPR008468DNA methyltransferase 1-associated 1
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0000812Cellular ComponentSwr1 complex
GO:0035267Cellular ComponentNuA4 histone acetyltransferase complex
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 451 aa     Download sequence    Send to blast
MDAKDILGLP KTPLPITQEK KPRPQKDSQR KPDGISREVY ALTGGLAPLM PSIDASQLKR  60
RPPSDEKITW QWLPFTSSAR KDDLQLYHWV RVVNGVPPTG DYSFAKYNKS VDVIKYTDEE  120
YEKYLTDPVW TKEETDQLFD LCERFDLRFI VIADRFPTFR TVEELKDRYY SVSRAILIAR  180
APSPGEVAGH PLVKEPYNVS QETERKRALS MVLSQTKQQE RKDAEVLAEA KRIAESRMAA  240
QGAEEPDLPV TSDIGPESVE RAIGHGDTIS PSSVQVPSAA VAPSTSIMAD NASTLASLRM  300
LRVYLRTYAL EQMVQAASSS AGLRTIKRVE QTLQDLEVNL KPKVPTKAVC AEHLELRKEI  360
LTLLNLQKQL QYKEAEGSSF RDGSYGDMPG TPKRSHRVVD QDRTFVPDAI SFGGERAGKR  420
EQKRKGPGRV SETPSSPAHK RPRKMKASDL *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3hm5_A7e-21101185491DNA methyltransferase 1-associated protein 1
4iej_A7e-21101185491DNA methyltransferase 1-associated protein 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtComponent of the SWR1 complex which mediates the ATP-dependent exchange of histone H2A for the H2A variant HZT1 leading to transcriptional regulation of selected genes by chromatin remodeling. Component of the NuA4 histone acetyltransferase complex which is involved in transcriptional activation of selected genes principally by acetylation of nucleosomal histone H4 and H2A. {ECO:0000305|Ref.5}.
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_007051200.20.0PREDICTED: SWR1-complex protein 4
RefseqXP_007051201.20.0PREDICTED: SWR1-complex protein 4
SwissprotQ8VZL60.0SWC4_ARATH; SWR1-complex protein 4
TrEMBLA0A061DSH00.0A0A061DSH0_THECC; Myb-like transcription factor family protein isoform 1
STRINGEOX953580.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM85432435
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G47210.10.0MYB_related family protein
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. Gómez-Zambrano Á, et al.
    Arabidopsis SWC4 Binds DNA and Recruits the SWR1 Complex to Modulate Histone H2A.Z Deposition at Key Regulatory Genes.
    Mol Plant, 2018. 11(6): p. 815-832
    [PMID:29604400]