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 Pavir.1NG065700.1.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family NF-YC
Protein Properties Length: 261aa    MW: 29147 Da    PI: 4.8154
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG065700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC176.33.1e-55811851102
                NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtd 87 
                          ql+ fw++q   ie++tdfknh+lPlarikki+kadedv+misaeaPv+++kace+fileltlrsw+h+eenkrrtl+k+diaaa+trtd
  Pavir.1NG065700.1.p  81 QLREFWTTQmdeIEQTTDFKNHTLPLARIKKIMKADEDVRMISAEAPVVFAKACEVFILELTLRSWMHTEENKRRTLQKNDIAAAITRTD 170
                          89******988889**************************************************************************** PP

                NF-YC  88 ifdflvdivprdelk 102
                          i+dflvdi+prde+k
  Pavir.1NG065700.1.p 171 IYDFLVDIIPRDEMK 185
                          ************975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471133.69E-3361175IPR009072Histone-fold
Gene3DG3DSA:1.10.20.102.2E-3795167IPR009072Histone-fold
PfamPF008088.1E-21103166IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 261 aa     Download sequence    Send to blast
MEPSSQPQPV MGVATAGSQA YPAAAAYAPP AMVPGAPAVV PPGSQPAAPF PNPAQLSAQH  60
QMVYQQAQQF HQQLQQQQQQ QLREFWTTQM DEIEQTTDFK NHTLPLARIK KIMKADEDVR  120
MISAEAPVVF AKACEVFILE LTLRSWMHTE ENKRRTLQKN DIAAAITRTD IYDFLVDIIP  180
RDEMKEEGLG LQRVGLPPAV GAPTDSYPPY YYMTAQQMPP GGGMIYGDQQ GHPVTYMWQQ  240
PQGQDEEPPE EQRQQRSTLK *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B6e-5988181295NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1153159RRTLQKN
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.14250.0callus| leaf| stem
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
PlantRegMapPavir.1NG065700.1.p
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
GenBankFP1001040.0FP100104.1 Phyllostachys edulis cDNA clone: bphylf054d17, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025818162.11e-147nuclear transcription factor Y subunit C-4-like
RefseqXP_025818170.11e-147nuclear transcription factor Y subunit C-4-like
RefseqXP_025818176.11e-147nuclear transcription factor Y subunit C-4-like
RefseqXP_025818183.11e-147nuclear transcription factor Y subunit C-4-like
SwissprotQ655V51e-118NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBLA0A2S3GLP41e-145A0A2S3GLP4_9POAL; Uncharacterized protein
TrEMBLA0A2T7F2F71e-145A0A2T7F2F7_9POAL; Uncharacterized protein
TrEMBLA0A3L6RUR71e-143A0A3L6RUR7_PANMI; Uncharacterized protein
STRINGPavir.Aa03384.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP27033790
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G56170.23e-75nuclear 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]