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 LOC_Os06g45640.1
Common NameLOC4341785, Os06g0667100, OsHAP5B, OsJ_22293, OSNPB_060667100, P0637D03.35
Organism
Oryza sativa subsp. japonica
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-YC
Protein Properties Length: 251aa    MW: 27837.3 Da    PI: 4.692
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g45640.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC175.45.8e-55791821101
             NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifd 90 
                       ql++fw+++   ie++tdfknh+lPlarikki+kadedv+misaeaPv+++kace+fileltlrsw+h+eenkrrtl+k+diaaa+trtd++d
  LOC_Os06g45640.1  79 QLQQFWAERlvdIEQTTDFKNHSLPLARIKKIMKADEDVRMISAEAPVIFAKACEIFILELTLRSWMHTEENKRRTLQKNDIAAAITRTDMYD 171
                       89*****998889******************************************************************************** PP

             NF-YC  91 flvdivprdel 101
                       flvdivprd+l
  LOC_Os06g45640.1 172 FLVDIVPRDDL 182
                       *********87 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471135.03E-3642173IPR009072Histone-fold
Gene3DG3DSA:1.10.20.101.9E-3793165IPR009072Histone-fold
PfamPF008085.0E-21101164IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0046982Molecular Functionprotein heterodimerization activity
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009049anatomyinflorescence
PO:0001083developmental stageinflorescence development stage
PO:0007006developmental stageIL.00 inflorescence just visible stage
Sequence ? help Back to Top
Protein Sequence    Length: 251 aa     Download sequence    Send to blast
MEPSSQPQPA IGVVAGGSQV YPAYRPAATV PTAPAVIPAG SQPAPSFPAN PDQLSAQHQL  60
VYQQAQQFHQ QLQQQQQRQL QQFWAERLVD IEQTTDFKNH SLPLARIKKI MKADEDVRMI  120
SAEAPVIFAK ACEIFILELT LRSWMHTEEN KRRTLQKNDI AAAITRTDMY DFLVDIVPRD  180
DLKEEGVGLP RAGLPPLGVP ADSYPYGYYV PQQQVPGAGI AYGGQQGHPG YLWQDPQEQQ  240
EEPPAEQQSD *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B4e-5790179695NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1151157RRTLQKN
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.245660.0callus| flower| panicle| root| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329902880.0
Expression AtlasQ655V5-
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of flowering time under long day (LD) conditions. Functions as repressor of flowering, independently of HD1 and GHD7. Controls flowering time by negatively regulating the expression of EHD1 and HD3A (PubMed:26542958). Component of the NF-Y/HAP transcription factor complex (By similarity). {ECO:0000250, ECO:0000269|PubMed:26542958}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os06g45640.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Circadian-regulation under long day (LD) conditions. Expression increases in the middle of daytime, peaks around the end of the light period and gradually decreases during the dark period and beginning of daylight. {ECO:0000269|PubMed:26542958}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g45640
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB2880420.0AB288042.1 Oryza sativa Japonica Group OsHAP5B gene for HAP5 subunit of HAP complex, complete cds.
GenBankAK0666300.0AK066630.1 Oryza sativa Japonica Group cDNA clone:J013068I17, full insert sequence.
GenBankAP0036330.0AP003633.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0637D03.
GenBankAP0149620.0AP014962.1 Oryza sativa Japonica Group DNA, chromosome 6, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015644345.10.0nuclear transcription factor Y subunit C-4
RefseqXP_025882178.10.0nuclear transcription factor Y subunit C-4
SwissprotQ655V50.0NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBLA0A0E0Q1D10.0A0A0E0Q1D1_ORYRU; Uncharacterized protein
TrEMBLA2YFZ90.0A2YFZ9_ORYSI; Uncharacterized protein
STRINGORUFI06G25870.10.0(Oryza rufipogon)
STRINGOS06T0667100-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP27033790
Representative plantOGRP31517117
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G56170.23e-66nuclear factor Y, subunit C2
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. Thirumurugan T,Ito Y,Kubo T,Serizawa A,Kurata N
    Identification, characterization and interaction of HAP family genes in rice.
    Mol. Genet. Genomics, 2008. 279(3): p. 279-89
    [PMID:18193457]
  3. Kim SK, et al.
    OsNF-YC2 and OsNF-YC4 proteins inhibit flowering under long-day conditions in rice.
    Planta, 2016. 243(3): p. 563-76
    [PMID:26542958]