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 KN543338.1_FGP002
Organism
Oryza longistaminata
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: 224aa    MW: 24425.2 Da    PI: 4.6988
Description NF-YB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN543338.1_FGP002genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YB1664.9e-5221114295
              NF-YB   2 reqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyrel 93 
                        +eqdrflPian++rim++++P+n+ki+kd+ke+vqecvsefisf+tseasdkc +ekrktingddl+w+++tlGfedyveplk+yl+ yre 
  KN543338.1_FGP002  21 KEQDRFLPIANIGRIMRRAVPENGKIAKDSKESVQECVSEFISFITSEASDKCLKEKRKTINGDDLIWSMGTLGFEDYVEPLKLYLRLYREG 112
                        89****************************************************************************************96 PP

              NF-YB  94 eg 95 
                        ++
  KN543338.1_FGP002 113 DT 114
                        65 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.20.101.3E-4620121IPR009072Histone-fold
SuperFamilySSF471131.43E-3523118IPR009072Histone-fold
PfamPF008082.1E-252690IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
PRINTSPR006151.2E-185472No hitNo description
PROSITE patternPS0068505773IPR003956Transcription factor, NFYB/HAP3, conserved site
PRINTSPR006151.2E-187391No hitNo description
PRINTSPR006151.2E-1892110No hitNo description
PfamPF056781.8E-10166192IPR008889VQ
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: 224 aa     Download sequence    Send to blast
MSEGFDGTEN GGGGGGGGVG KEQDRFLPIA NIGRIMRRAV PENGKIAKDS KESVQECVSE  60
FISFITSEAS DKCLKEKRKT INGDDLIWSM GTLGFEDYVE PLKLYLRLYR EGDTKGSRAS  120
ELPVKKDVVL NGDPGSSEGE PSFLGKERSS ILLCWEDEAK PVTVKIIETV YVEADTADDF  180
KSVVQRLTGK DAVAGDAPEL NSAQRFGSGR EASRHGDHQV RIYE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1n1j_A1e-4421111393NF-YB
4awl_B1e-4421111494NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
4csr_A1e-4421111494NUCLEAR 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN543338.1_FGP002
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0954400.0AB095440.1 Oryza sativa Japonica Group OsHAP3C mRNA for HAP3, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015638071.11e-83nuclear transcription factor Y subunit B-4
SwissprotQ65XK11e-84NFYB4_ORYSJ; Nuclear transcription factor Y subunit B-4
TrEMBLB8AWV31e-147B8AWV3_ORYSI; Uncharacterized protein
STRINGOS05T0573500-004e-83(Oryza sativa)
STRINGONIVA05G28620.25e-83(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
AT2G38880.72e-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]