PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID ORGLA05G0230300.1
Organism
Oryza glaberrima
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: 144aa    MW: 15587.5 Da    PI: 4.6378
Description NF-YB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA05G0230300.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YB173.13e-5422118298
              NF-YB   2 reqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyrel 93 
                        +eqdrflPian++rim++++P+n+ki+kd+ke+vqecvsefisf+tseasdkc +ekrktingddl+w+++tlGfedyveplk+yl+ yre+
  ORGLA05G0230300.1  22 KEQDRFLPIANIGRIMRRAVPENGKIAKDSKESVQECVSEFISFITSEASDKCLKEKRKTINGDDLIWSMGTLGFEDYVEPLKLYLRLYRET 113
                        89****************************************************************************************** PP

              NF-YB  94 egekk 98 
                        eg++k
  ORGLA05G0230300.1 114 EGDTK 118
                        **975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.20.102.7E-4821122IPR009072Histone-fold
SuperFamilySSF471137.92E-3724120IPR009072Histone-fold
PfamPF008088.1E-262791IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
PRINTSPR006154.7E-195573No hitNo description
PROSITE patternPS0068505874IPR003956Transcription factor, NFYB/HAP3, conserved site
PRINTSPR006154.7E-197492No hitNo description
PRINTSPR006154.7E-1993111No 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: 144 aa     Download sequence    Send to blast
MSEGFDGTEN GGGGGGGGGV GKEQDRFLPI ANIGRIMRRA VPENGKIAKD SKESVQECVS  60
EFISFITSEA SDKCLKEKRK TINGDDLIWS MGTLGFEDYV EPLKLYLRLY RETEGDTKGS  120
RASELPVKKD VVLNGDPGSS FEGM
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1n1j_A4e-4622112393NF-YB
4awl_B4e-4622112494NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
4csr_A4e-4622112494NUCLEAR 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
PlantRegMapORGLA05G0230300.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
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_015638071.11e-89nuclear transcription factor Y subunit B-4
SwissprotQ65XK19e-91NFYB4_ORYSJ; Nuclear transcription factor Y subunit B-4
TrEMBLI1PY555e-99I1PY55_ORYGL; Uncharacterized protein
STRINGORGLA05G0230300.11e-100(Oryza glaberrima)
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
AT2G37060.38e-59nuclear factor Y, subunit B8
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]