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 KN539024.1_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-YC
Protein Properties Length: 249aa    MW: 28254.9 Da    PI: 4.4045
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN539024.1_FGP002genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC149.56.9e-47781811101
              NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdif 89 
                        ql++fw++q   +e++t+fk  +lPlarikki+kadedvkmi+ eaP+l++kace+fil++tlrsw h+ee +rrtl++sd++a++++ dif
  KN539024.1_FGP002  78 QLQAFWADQmaeVEQMTEFKLPNLPLARIKKIMKADEDVKMIAGEAPALFAKACEMFILDMTLRSWQHTEEGRRRTLQRSDVEAVIKKIDIF 169
                        89******9777799***************************************************************************** PP

              NF-YC  90 dflvdivprdel 101
                        dflvdi+  +++
  KN539024.1_FGP002 170 DFLVDIITDEQM 181
                        ******998865 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471132.51E-2958172IPR009072Histone-fold
PfamPF008087.0E-19100162IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene3DG3DSA:1.10.20.101.9E-32101176IPR009072Histone-fold
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 249 aa     Download sequence    Send to blast
MDPHSHKKAN EGLIGDNPDA YAMTTYQPVL MVEPSAAAAF PPAPQVAPAY PVNPMELPEH  60
QQHAIQQVQQ LQQQQKEQLQ AFWADQMAEV EQMTEFKLPN LPLARIKKIM KADEDVKMIA  120
GEAPALFAKA CEMFILDMTL RSWQHTEEGR RRTLQRSDVE AVIKKIDIFD FLVDIITDEQ  180
MKDDGMGSQA ASMVSPYTSG GMGFSFDLYP NQHHLAYMWP PQEQQEQWPP LEQQEQKQKQ  240
DSDGGGQDE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B1e-4186176393NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1150156RRTLQRS
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
PlantRegMapKN539024.1_FGP002
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-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB2880460.0AB288046.1 Oryza sativa Japonica Group OsHAP5F gene for HAP5 subunit of HAP complex, complete cds.
GenBankAP0038750.0AP003875.3 Oryza sativa Japonica Group genomic DNA, chromosome 8, BAC clone:OJ1119_C05.
GenBankAP0149640.0AP014964.1 Oryza sativa Japonica Group DNA, chromosome 8, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015649457.11e-128nuclear transcription factor Y subunit C-4-like
SwissprotQ655V53e-55NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBLA3BQM61e-127A3BQM6_ORYSJ; Uncharacterized protein
STRINGOMERI08G06040.11e-127(Oryza meridionalis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP169771112
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G56170.21e-49nuclear 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. 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]