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 Bradi3g56400.1.p
Common NameBRADI_3g56400, LOC100830019
Organism
Brachypodium distachyon
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family NF-YB
Protein Properties Length: 256aa    MW: 26587.5 Da    PI: 6.8915
Description NF-YB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi3g56400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YB167.41.8e-5236131297
             NF-YB   2 reqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyrele 94 
                       reqdr++Pianv+rim++vlP +akis+daket+qecvse+isf+t+ea+++cqre+rkti+++d+lwa++ lGf+dyv+pl vyl+++re+e
  Bradi3g56400.1.p  36 REQDRLMPIANVIRIMRRVLPPHAKISDDAKETIQECVSEYISFITGEANERCQREQRKTITAEDVLWAMSRLGFDDYVHPLGVYLHRFREFE 128
                       89******************************************************************************************* PP

             NF-YB  95 gek 97 
                       ge 
  Bradi3g56400.1.p 129 GEA 131
                       985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.20.101.8E-4733132IPR009072Histone-fold
SuperFamilySSF471131.61E-3638133IPR009072Histone-fold
PfamPF008083.0E-2542105IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
PRINTSPR006151.2E-146987No hitNo description
PROSITE patternPS0068507288IPR003956Transcription factor, NFYB/HAP3, conserved site
PRINTSPR006151.2E-1488106No hitNo description
PRINTSPR006151.2E-14107125No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009738Biological Processabscisic acid-activated signaling pathway
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0033613Molecular Functionactivating transcription factor binding
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 256 aa     Download sequence    Send to blast
MEMGFAAGTA ANGGGGAAAA TNGGGGGKAP AAAAIREQDR LMPIANVIRI MRRVLPPHAK  60
ISDDAKETIQ ECVSEYISFI TGEANERCQR EQRKTITAED VLWAMSRLGF DDYVHPLGVY  120
LHRFREFEGE ARGGGLGAGA GGSLRSPRGG PAPGSASSMV PGAQHHHDMQ MHAAAMYGNP  180
MAPPHHHAFL MPQPHYGQQY EMYGGGEHGM GAAAYYGGGY APGNGGHNGD SGSGGGGANT  240
PQAVNFEHQQ PFGYK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_A6e-6034126597NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT B-6
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtComponent of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters. Plays a role in the regulation of the embryogenesis. Involved in the abscisic acid (ABA) signaling pathway. {ECO:0000269|PubMed:12509518, ECO:0000269|PubMed:17322342}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapBradi3g56400.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2102601e-130AC210260.5 Zea mays BAC clone CH201-44F4 from chromosome 5, complete sequence.
GenBankAC2432571e-130AC243257.1 Panicum virgatum clone PV_ABa103-H05, complete sequence.
GenBankAF4101761e-130AF410176.1 Zea mays leafy cotyledon1 (Lec1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003570473.10.0nuclear transcription factor Y subunit B-3
SwissprotQ84W662e-62NFYB6_ARATH; Nuclear transcription factor Y subunit B-6
TrEMBLI1IEB50.0I1IEB5_BRADI; Uncharacterized protein
STRINGBRADI3G56400.10.0(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20138331
Representative plantOGRP16817170
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G47670.27e-55nuclear factor Y, subunit B6
Publications ? help Back to Top
  1. Jia H,McCarty DR,Suzuki M
    Distinct roles of LAFL network genes in promoting the embryonic seedling fate in the absence of VAL repression.
    Plant Physiol., 2013. 163(3): p. 1293-305
    [PMID:24043445]
  2. Kim HU, et al.
    Ectopic overexpression of castor bean LEAFY COTYLEDON2 (LEC2) in Arabidopsis triggers the expression of genes that encode regulators of seed maturation and oil body proteins in vegetative tissues.
    FEBS Open Bio, 2013. 4: p. 25-32
    [PMID:24363987]
  3. Gnesutta N,Saad D,Chaves-Sanjuan A,Mantovani R,Nardini M
    Crystal Structure of the Arabidopsis thaliana L1L/NF-YC3 Histone-fold Dimer Reveals Specificities of the LEC1 Family of NF-Y Subunits in Plants.
    Mol Plant, 2017. 10(4): p. 645-648
    [PMID:27871811]
  4. Li D, et al.
    MYB89 Transcription Factor Represses Seed Oil Accumulation.
    Plant Physiol., 2017. 173(2): p. 1211-1225
    [PMID:27932421]
  5. Zhao H, et al.
    The Arabidopsis thaliana Nuclear Factor Y Transcription Factors.
    Front Plant Sci, 2016. 7: p. 2045
    [PMID:28119722]
  6. Han JD, et al.
    Evolutionary Analysis of the LAFL Genes Involved in the Land Plant Seed Maturation Program.
    Front Plant Sci, 2017. 8: p. 439
    [PMID:28421087]