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 Sobic.009G239600.2.p
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family NF-YB
Protein Properties Length: 138aa    MW: 15272.5 Da    PI: 5.317
Description NF-YB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.009G239600.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YB167.81.3e-5215107294
                 NF-YB   2 reqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkky 90 
                           +eqdrflPian++rim++++P+n+ki+kd+ke++qecvsefisf+tseasdkc +e+rktingdd++w+l+tlGfe+yveplk+ylk+y
  Sobic.009G239600.2.p  15 KEQDRFLPIANIGRIMRRAVPENGKIAKDSKESIQECVSEFISFITSEASDKCMKERRKTINGDDIIWSLGTLGFEEYVEPLKIYLKNY 103
                           89*************************************************************************************** PP

                 NF-YB  91 rele 94 
                           re+ 
  Sobic.009G239600.2.p 104 REVS 107
                           **96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.20.101.1E-4714106IPR009072Histone-fold
SuperFamilySSF471131.16E-3617107IPR009072Histone-fold
PfamPF008086.6E-262083IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
PRINTSPR006158.7E-204866No hitNo description
PROSITE patternPS0068505167IPR003956Transcription factor, NFYB/HAP3, conserved site
PRINTSPR006158.7E-206785No hitNo description
PRINTSPR006158.7E-2086104No 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: 138 aa     Download sequence    Send to blast
MSEAEAACGG GGGGKEQDRF LPIANIGRIM RRAVPENGKI AKDSKESIQE CVSEFISFIT  60
SEASDKCMKE RRKTINGDDI IWSLGTLGFE EYVEPLKIYL KNYREVSFNS NLPLSSSSCY  120
WVFIIIVFKR EGTICGV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1n1j_A2e-4415105393NF-YB
4awl_B2e-4415105494NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
4csr_A2e-4415105494NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Ubiquitous. {ECO:0000269|PubMed:14617083}.
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. May regulate the expression of photosynthetic genes, and may be involved in chloroplast and amyloplast development. {ECO:0000269|PubMed:14617083}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.009G239600.2.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
GenBankKM0787421e-100KM078742.1 Triticum aestivum CCAAT-binding transcription factor A (NFYB-D11) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021302582.14e-72nuclear transcription factor Y subunit B-4
RefseqXP_021302583.14e-72nuclear transcription factor Y subunit B-4
SwissprotQ65XK14e-57NFYB4_ORYSJ; Nuclear transcription factor Y subunit B-4
TrEMBLA0A1Z5R4V84e-95A0A1Z5R4V8_SORBI; Uncharacterized protein
STRINGSb09g029140.15e-71(Sorghum bicolor)
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
AT2G38880.64e-52nuclear factor Y, subunit B1
Publications ? help Back to Top
  1. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]