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 BGIOSGA020407-PA
Common NameOsI_21074
Organism
Oryza sativa subsp. indica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Family NF-YB
Protein Properties Length: 230aa    MW: 24798.6 Da    PI: 4.8688
Description NF-YB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
BGIOSGA020407-PAgenomeRISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YB165.95.2e-5222115295
             NF-YB   2 reqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyrele 94 
                       +eqdrflPian++rim++++P+n+ki+kd+ke+vqecvsefisf+tseasdkc +ekrktingddl+w+++tlGfedyveplk+yl+ yre +
  BGIOSGA020407-PA  22 KEQDRFLPIANIGRIMRRAVPENGKIAKDSKESVQECVSEFISFITSEASDKCLKEKRKTINGDDLIWSMGTLGFEDYVEPLKLYLRLYREGD 114
                       89****************************************************************************************966 PP

             NF-YB  95 g 95 
                       +
  BGIOSGA020407-PA 115 T 115
                       5 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.20.101.2E-4621122IPR009072Histone-fold
SuperFamilySSF471131.6E-3524119IPR009072Histone-fold
PfamPF008082.2E-252791IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
PRINTSPR006151.3E-185573No hitNo description
PROSITE patternPS0068505874IPR003956Transcription factor, NFYB/HAP3, conserved site
PRINTSPR006151.3E-187492No hitNo description
PRINTSPR006151.3E-1893111No hitNo description
PfamPF056781.8E-10167193IPR008889VQ
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: 230 aa     Download sequence    Send to blast
MSEGFDGTEN GGGGGGGGGV GKEQDRFLPI ANIGRIMRRA VPENGKIAKD SKESVQECVS  60
EFISFITSEA SDKCLKEKRK TINGDDLIWS MGTLGFEDYV EPLKLYLRLY REGDTKGSRA  120
SELPVKKDVV LNGDPGSSEG EPSFLGKERS SILLCWEDEA KPVTVKIIET VYVEADTADD  180
FKSVVQRLTG KDAVAGDAPE LNSAQRFGSG REASRHGDHK VGSSSEKKSS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1n1j_A6e-4522112393NF-YB
4awl_B6e-4522112494NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
4csr_A6e-4522112494NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.280380.0callus| panicle
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1166318180.0
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCT8379750.0CT837975.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCFA013H22, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015638071.14e-82nuclear transcription factor Y subunit B-4
SwissprotQ65XK14e-83NFYB4_ORYSJ; Nuclear transcription factor Y subunit B-4
TrEMBLB8AWV31e-165B8AWV3_ORYSI; Uncharacterized protein
STRINGONIVA05G28620.21e-94(Oryza nivara)
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
AT2G38880.71e-55nuclear 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]