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 OGLUM05G20580.1
Organism
Oryza glumaepatula
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
Family NF-YB
Protein Properties Length: 109aa    MW: 12612.7 Da    PI: 8.0361
Description NF-YB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OGLUM05G20580.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YB152.76.9e-481801796
            NF-YB 17 mkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyrelege 96
                     mkk++Pan+ki+kdaketvqecvsefisf+tseasdkcqrekrktingddllwa+atlGfedy+eplkvyl+kyre+e++
  OGLUM05G20580.1  1 MKKAIPANGKIAKDAKETVQECVSEFISFITSEASDKCQREKRKTINGDDLLWAMATLGFEDYIEPLKVYLQKYREMEEA 80
                     9****************************************************************************975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.20.101.6E-43190IPR009072Histone-fold
PfamPF008088.4E-22155IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
SuperFamilySSF471133.55E-32180IPR009072Histone-fold
PRINTSPR006154.5E-231937No hitNo description
PROSITE patternPS0068502238IPR003956Transcription factor, NFYB/HAP3, conserved site
PRINTSPR006154.5E-233856No hitNo description
PRINTSPR006154.5E-235775No 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: 109 aa     Download sequence    Send to blast
MKKAIPANGK IAKDAKETVQ ECVSEFISFI TSEASDKCQR EKRKTINGDD LLWAMATLGF  60
EDYIEPLKVY LQKYREMEEA VQVPKGWANK QHTIKEWVIC NLRIFLLAM
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4awl_B3e-401761994NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
4csr_A3e-401761994NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
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. 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
GenBankAB0954391e-128AB095439.1 Oryza sativa Japonica Group OsHAP3B mRNA for HAP3, partial cds.
GenBankAK1008111e-128AK100811.1 Oryza sativa Japonica Group cDNA clone:J023121O11, full insert sequence.
GenBankAY2245301e-128AY224530.1 Oryza sativa (japonica cultivar-group) isolate 21744 CCAAT-binding transcription factor-like protein mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015639303.11e-52nuclear transcription factor Y subunit B-3
RefseqXP_015639304.11e-52nuclear transcription factor Y subunit B-3
RefseqXP_015639305.11e-52nuclear transcription factor Y subunit B-3
SwissprotQ60EQ41e-53NFYB3_ORYSJ; Nuclear transcription factor Y subunit B-3
TrEMBLA0A0E0A0D42e-75A0A0E0A0D4_9ORYZ; Uncharacterized protein
STRINGOGLUM05G20580.13e-76(Oryza glumipatula)
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
AT2G37060.37e-51nuclear factor Y, subunit B8
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]