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 Neem_3953_f_1
Organism
Azadirachta indica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family NF-YA
Protein Properties Length: 351aa    MW: 37779.3 Da    PI: 7.5926
Description NF-YA family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_3953_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1CBFB_NFYA100.12.2e-31176232158
      CBFB_NFYA   1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 
                    +ep+YVNaKQy +Il+RRq+Rak+e  kkl +k rkpylheSRh+hA+rR+Rg+gGrF
  Neem_3953_f_1 176 QEPVYVNAKQYMGILRRRQARAKAELAKKL-IKVRKPYLHESRHQHAMRRARGTGGRF 232
                    69****************************.**************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005215.8E-35174235IPR001289Nuclear transcription factor Y subunit A
PROSITE profilePS5115235.989175235IPR001289Nuclear transcription factor Y subunit A
PfamPF020452.7E-27177232IPR001289Nuclear transcription factor Y subunit A
PRINTSPR006168.9E-24178200IPR001289Nuclear transcription factor Y subunit A
PROSITE patternPS006860180200IPR018362CCAAT-binding factor, conserved site
PRINTSPR006168.9E-24209232IPR001289Nuclear 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: 351 aa     Download sequence    Send to blast
MRSKSESSNQ LEPDPHSGPP TTVYSEQPWW RGVGYNSISP AVVGANVSNS SSLECPNGSE  60
SNDDQSMSNG GLNEECGDAN KEAQATASSR SVGNCGQDNQ NVQQGGASAM PTMHEECFTQ  120
PPQLELVGHS IACASNPYQD PYYGGMMATY GHQPLGYPQF VGMPHARMPL PLEMAQEPVY  180
VNAKQYMGIL RRRQARAKAE LAKKLIKVRK PYLHESRHQH AMRRARGTGG RFAKKTDNDT  240
SKGTGEKKGR GSGPMRSQSG SSSGSEPLQC DSAEAWNSSA SQQDARGLQA HNTHEGGNHV  300
NGSGFYQNHG GLQASTYPSR LGDRGEDGDC SGQQWGSMSS NQSSQRPLTI Q
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4awl_A2e-18176240266NUCLEAR 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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006446125.10.0nuclear transcription factor Y subunit A-1 isoform X1
RefseqXP_006446126.10.0nuclear transcription factor Y subunit A-1 isoform X1
RefseqXP_006446127.10.0nuclear transcription factor Y subunit A-1 isoform X1
RefseqXP_006446128.10.0nuclear transcription factor Y subunit A-1 isoform X1
RefseqXP_006470619.10.0nuclear transcription factor Y subunit A-1
RefseqXP_006470620.10.0nuclear transcription factor Y subunit A-1
RefseqXP_006470621.10.0nuclear transcription factor Y subunit A-1
RefseqXP_006470622.10.0nuclear transcription factor Y subunit A-1
SwissprotQ9LXV52e-85NFYA1_ARATH; Nuclear transcription factor Y subunit A-1
TrEMBLA0A067F5720.0A0A067F572_CITSI; Uncharacterized protein
TrEMBLV4U5J80.0V4U5J8_9ROSI; Uncharacterized protein
STRINGXP_006470619.10.0(Citrus sinensis)
STRINGXP_006446125.10.0(Citrus clementina)
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
AT5G12840.33e-80nuclear factor Y, subunit A1
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. 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]
  3. Zhao H, et al.
    The Arabidopsis thaliana Nuclear Factor Y Transcription Factors.
    Front Plant Sci, 2016. 7: p. 2045
    [PMID:28119722]