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 Pavir.4NG275600.1.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: 247aa    MW: 27403.1 Da    PI: 4.9197
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.4NG275600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC176.23.3e-55711751102
                NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtd 87 
                          ql++fw+++   ie++tdfknh+lPlarikki+kadedv+misaeaPv+++kace+fileltlrsw+h+eenkrrtl+k+diaaa+trtd
  Pavir.4NG275600.1.p  71 QLQQFWAERladIEQTTDFKNHTLPLARIKKIMKADEDVRMISAEAPVVFAKACEIFILELTLRSWMHTEENKRRTLQKNDIAAAITRTD 160
                          89*****98888****************************************************************************** PP

                NF-YC  88 ifdflvdivprdelk 102
                          i+dflvdivprde+k
  Pavir.4NG275600.1.p 161 IYDFLVDIVPRDEMK 175
                          ************975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471131.17E-3341165IPR009072Histone-fold
Gene3DG3DSA:1.10.20.101.2E-3785157IPR009072Histone-fold
PfamPF008085.7E-2193156IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
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: 247 aa     Download sequence    Send to blast
MEPTSQPQPA IGVVAYPPAA TIVSPSAVAA AGLQPGQAFA ANPAQMSAQH QVVYQQAQQF  60
HLQLQQQQQR QLQQFWAERL ADIEQTTDFK NHTLPLARIK KIMKADEDVR MISAEAPVVF  120
AKACEIFILE LTLRSWMHTE ENKRRTLQKN DIAAAITRTD IYDFLVDIVP RDEMKEEGVG  180
LPRAGLPPMG APADAHPYYY MPQQQVPGGG MVYGTQQGHP VTYLWQEPQE QQEPPPEEQQ  240
PLPGSG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B3e-5780171495NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1143149RRTLQKN
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.4NG275600.1.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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004966318.11e-125nuclear transcription factor Y subunit C-4
SwissprotQ655V51e-126NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBLA0A3L6RXP41e-130A0A3L6RXP4_PANMI; Nuclear transcription factor Y subunit C-2-like
STRINGPavir.Db00412.1.p1e-180(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
AT1G56170.24e-72nuclear 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]