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 ORGLA05G0169600.1
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: 185aa    MW: 19180.2 Da    PI: 6.7879
Description NF-YB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA05G0169600.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YB187.88e-5936132197
              NF-YB   1 vreqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyre 92 
                        vreqdrflPian+srimkk++Pan+ki+kdaketvqecvsefisf+tseasdkcqrekrktingddllwa+atlGfedy+eplkvyl+kyre
  ORGLA05G0169600.1  36 VREQDRFLPIANISRIMKKAIPANGKIAKDAKETVQECVSEFISFITSEASDKCQREKRKTINGDDLLWAMATLGFEDYIEPLKVYLQKYRE 127
                        69****************************************************************************************** PP

              NF-YB  93 legek 97 
                        +eg++
  ORGLA05G0169600.1 128 MEGDS 132
                        ***97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.20.107.5E-5535140IPR009072Histone-fold
SuperFamilySSF471132.48E-4039136IPR009072Histone-fold
PfamPF008082.5E-2842106IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
PRINTSPR006151.3E-227088No hitNo description
PROSITE patternPS0068507389IPR003956Transcription factor, NFYB/HAP3, conserved site
PRINTSPR006151.3E-2289107No hitNo description
PRINTSPR006151.3E-22108126No 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: 185 aa     Download sequence    Send to blast
MADGPGSPGG GGGSHESGSP RGGGGGGGGG GGGGGVREQD RFLPIANISR IMKKAIPANG  60
KIAKDAKETV QECVSEFISF ITSEASDKCQ REKRKTINGD DLLWAMATLG FEDYIEPLKV  120
YLQKYREMEG DSKLTAKAGD GSVKKDVLGS HGGSSSSAQG MGQQAAYNQG MGYMQPQYHN  180
GDVSN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1n1j_A3e-5035127193NF-YB
4awl_B3e-5035127294NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
4csr_A3e-5035127294NUCLEAR 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
PlantRegMapORGLA05G0169600.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1008110.0AK100811.1 Oryza sativa Japonica Group cDNA clone:J023121O11, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015639303.11e-132nuclear transcription factor Y subunit B-3
RefseqXP_015639304.11e-132nuclear transcription factor Y subunit B-3
RefseqXP_015639305.11e-132nuclear transcription factor Y subunit B-3
SwissprotQ60EQ41e-133NFYB3_ORYSJ; Nuclear transcription factor Y subunit B-3
TrEMBLB7EQX81e-131B7EQX8_ORYSJ; cDNA clone:J023121O11, full insert sequence
TrEMBLI1PWE81e-131I1PWE8_ORYGL; Uncharacterized protein
STRINGORGLA05G0169600.11e-132(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
AT2G37060.34e-70nuclear 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]