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 Rsa1.0_00414.1_g00024.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family NF-YB
Protein Properties Length: 196aa    MW: 21859.4 Da    PI: 6.3564
Description NF-YB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00414.1_g00024.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YB173.13e-5423117195
                    NF-YB   1 vreqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvy 86 
                              vreqdrf+Pianv+rim+++lPa+akis+d+ket+qecvse+isfvt+ea+++cqre+rkti+++d+lwa+++lGf+dy+epl++y
  Rsa1.0_00414.1_g00024.1  23 VREQDRFMPIANVIRIMRRILPAHAKISDDSKETIQECVSEYISFVTGEANERCQREQRKTITAEDVLWAMSKLGFDDYIEPLTLY 108
                              69************************************************************************************ PP

                    NF-YB  87 lkkyreleg 95 
                              l++yreleg
  Rsa1.0_00414.1_g00024.1 109 LHRYRELEG 117
                              *******98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.20.109.7E-5018121IPR009072Histone-fold
SuperFamilySSF471137.38E-3826132IPR009072Histone-fold
PfamPF008087.5E-252993IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
PRINTSPR006155.9E-175775No hitNo description
PROSITE patternPS0068506076IPR003956Transcription factor, NFYB/HAP3, conserved site
PRINTSPR006155.9E-177694No hitNo description
PRINTSPR006155.9E-1795113No 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: 196 aa     Download sequence    Send to blast
MQLSELNHPN KTANGGGEEE CTVREQDRFM PIANVIRIMR RILPAHAKIS DDSKETIQEC  60
VSEYISFVTG EANERCQREQ RKTITAEDVL WAMSKLGFDD YIEPLTLYLH RYRELEGGDR  120
GGVSYNAGGS VSMTNGMVVK RPNGIEYGSY GGTMPGIHMA YRHQNGFVYN GNESNTRMGG  180
GSSSASSVFP TQQQKY
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_A2e-6522114597NUCLEAR 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
PlantRegMapRsa1.0_00414.1_g00024.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU3717271e-142EU371727.1 Brassica napus leafy cotyledon 1-like protein (L1L) gene, complete cds.
GenBankKC7876671e-142KC787667.1 Brassica napus transcription factor subunit NF-YB6B (NF-YB6B) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018456756.11e-136PREDICTED: nuclear transcription factor Y subunit B-6-like
RefseqXP_018456757.11e-136PREDICTED: nuclear transcription factor Y subunit B-6-like
RefseqXP_018456758.11e-136PREDICTED: nuclear transcription factor Y subunit B-6-like
RefseqXP_018456759.11e-136PREDICTED: nuclear transcription factor Y subunit B-6-like
SwissprotQ84W661e-106NFYB6_ARATH; Nuclear transcription factor Y subunit B-6
TrEMBLA0A087GNA21e-109A0A087GNA2_ARAAL; Uncharacterized protein
STRINGA0A087GNA21e-110(Arabis alpina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM98962636
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G47670.21e-109nuclear 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]