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 Seita.6G045900.1.p
Common NameLOC101770060, SETIT_014286mg
Organism
Setaria italica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family NF-YB
Protein Properties Length: 263aa    MW: 26274.9 Da    PI: 5.3581
Description NF-YB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Seita.6G045900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YB177.41.4e-5552147297
               NF-YB   2 reqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyre 92 
                         +eqdrflPianvsrimk+ lPanakisk+aketvqecvsefisfvt+easdkcqrekrktingddllwa++tlGfe yv plk yl++yre
  Seita.6G045900.1.p  52 KEQDRFLPIANVSRIMKRSLPANAKISKEAKETVQECVSEFISFVTGEASDKCQREKRKTINGDDLLWAMTTLGFEAYVGPLKSYLNRYRE 142
                         89***************************************************************************************** PP

               NF-YB  93 legek 97 
                         +egek
  Seita.6G045900.1.p 143 AEGEK 147
                         **997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.20.102.6E-5149150IPR009072Histone-fold
SuperFamilySSF471139.94E-3954161IPR009072Histone-fold
PfamPF008086.8E-2757121IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
PRINTSPR006153.9E-1885103No hitNo description
PROSITE patternPS00685088104IPR003956Transcription factor, NFYB/HAP3, conserved site
PRINTSPR006153.9E-18104122No hitNo description
PRINTSPR006153.9E-18123141No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 263 aa     Download sequence    Send to blast
MKSRKGYGQQ QGHLLSPVGS PPSDNESGAA AAAAAAWCGS SAGYCGGDSP AKEQDRFLPI  60
ANVSRIMKRS LPANAKISKE AKETVQECVS EFISFVTGEA SDKCQREKRK TINGDDLLWA  120
MTTLGFEAYV GPLKSYLNRY REAEGEKAAV LGGAGARHGD GGGGVADDGA DMLGAGGGAA  180
AAGIDRAGGH DAGGGGSADV GLMMGVSVGF GAGGGTSYYA AAAGKAYGAG DGSKVVEFDG  240
DEENGGGMQR GFGGHLHGAV QW*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_A4e-4646142197NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT B-6
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of flowering time under long day (LD) conditions. Functions as repressor of flowering, independently of HD1 and GHD7. Controls flowering time by negatively regulating the expression of EHD1 and HD3A (PubMed:20566706, PubMed:21148627). Regulates plant height by promoting cell elongation in the internodes (PubMed:20566706). Component of the NF-Y/HAP transcription factor complex (By similarity). {ECO:0000250, ECO:0000269|PubMed:20566706, ECO:0000269|PubMed:21148627}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSeita.6G045900.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Circadian-regulation under long day (LD) conditions. Expression increases in the middle of daytime, peaks around the end of the light period and gradually decreases during the dark period and beginning of daylight. {ECO:0000269|PubMed:26542958}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankLC0167211e-156LC016721.1 Oryza sativa Indica Group Hd5 gene for heading date 5, complete cds, cultivar: Bleiyo.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004972725.10.0nuclear transcription factor Y subunit B-11
SwissprotQ0J7P47e-81HD5_ORYSJ; Nuclear transcription factor Y subunit B-11
TrEMBLK3YJ670.0K3YJ67_SETIT; Uncharacterized protein
STRINGSi014286m0.0(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20138331
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G14540.14e-60nuclear factor Y, subunit B3
Publications ? help Back to Top
  1. Yan WH, et al.
    A major QTL, Ghd8, plays pleiotropic roles in regulating grain productivity, plant height, and heading date in rice.
    Mol Plant, 2011. 4(2): p. 319-30
    [PMID:21148627]
  2. Dai X, et al.
    LHD1, an allele of DTH8/Ghd8, controls late heading date in common wild rice (Oryza rufipogon).
    J Integr Plant Biol, 2012. 54(10): p. 790-9
    [PMID:22963226]
  3. Kim SK, et al.
    OsNF-YC2 and OsNF-YC4 proteins inhibit flowering under long-day conditions in rice.
    Planta, 2016. 243(3): p. 563-76
    [PMID:26542958]