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 Thecc1EG040712t1
Common NameTCM_040712
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 NF-YA
Protein Properties Length: 316aa    MW: 33802.1 Da    PI: 8.1593
Description NF-YA family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG040712t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1CBFB_NFYA103.32.2e-32173229158
         CBFB_NFYA   1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 
                       +ep+YVNaKQyq+Il+RRq+Rak+e ekk+  k rkpylheSRh+hA+rR+RgsgGrF
  Thecc1EG040712t1 173 QEPVYVNAKQYQGILRRRQARAKAELEKKV-VKVRKPYLHESRHQHAMRRARGSGGRF 229
                       69****************************.**************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005212.5E-35171232IPR001289Nuclear transcription factor Y subunit A
PROSITE profilePS5115236.698172232IPR001289Nuclear transcription factor Y subunit A
PfamPF020457.8E-29174229IPR001289Nuclear transcription factor Y subunit A
PRINTSPR006163.5E-24175197IPR001289Nuclear transcription factor Y subunit A
PROSITE patternPS006860177197IPR018362CCAAT-binding factor, conserved site
PRINTSPR006163.5E-24206229IPR001289Nuclear transcription factor Y subunit A
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010262Biological Processsomatic embryogenesis
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0055046Biological Processmicrogametogenesis
GO:0016602Cellular ComponentCCAAT-binding factor complex
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 316 aa     Download sequence    Send to blast
MQSKSEGGSR LEPDLHGVPP TAVYSEPWWR NIGYSAISPG VRGGNTSNSS SMECPNGSES  60
NDGQSLSNGG VNEEDDGNKE TQTTASSRSV GNGGQEHHNL QHVASTMPAM HDECLTQPPQ  120
LELVGHSIAC AANPYQDPFY GGMMAAYGHQ PLGYPPFVGM PHARMALPIE MAQEPVYVNA  180
KQYQGILRRR QARAKAELEK KVVKVRKPYL HESRHQHAMR RARGSGGRFA KKSDADTSRK  240
GTGSGPALSS QSASSSGSEP LPADSAETWN SSLSQQEARG SQVHDTHHVN GSGHYQNRGG  300
SISSNQASHR PLAIQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4awl_A1e-19173237266NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtStimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters. {ECO:0000250}.
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_007015064.10.0PREDICTED: nuclear transcription factor Y subunit A-1 isoform X1
SwissprotQ9LXV59e-95NFYA1_ARATH; Nuclear transcription factor Y subunit A-1
TrEMBLA0A061GTI40.0A0A061GTI4_THECC; Nuclear transcription factor Y subunit A-9, putative
STRINGEOY326830.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM59462646
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G12840.31e-80nuclear factor Y, subunit A1
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. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Siriwardana CL, et al.
    NUCLEAR FACTOR Y, Subunit A (NF-YA) Proteins Positively Regulate Flowering and Act Through FLOWERING LOCUS T.
    PLoS Genet., 2016. 12(12): p. e1006496
    [PMID:27977687]
  4. Zhao H, et al.
    The Arabidopsis thaliana Nuclear Factor Y Transcription Factors.
    Front Plant Sci, 2016. 7: p. 2045
    [PMID:28119722]