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.6KG104000.1.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: 333aa    MW: 35965.2 Da    PI: 5.0372
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6KG104000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC145.51.2e-451662691101
                NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtd 87 
                          ql++ w+ q    e+atd+k h+lPlarikki+kadedvkmi+ae+Pv+++kace+fileltlrswl+ae +krrtl++sd+aaa+   +
  Pavir.6KG104000.1.p 166 QLQALWTGQlveAEQATDLKVHNLPLARIKKIMKADEDVKMIAAEVPVVFAKACEMFILELTLRSWLQAEWSKRRTLQRSDVAAAIIANE 255
                          799****9988889**************************************************************************** PP

                NF-YC  88 ifdflvdivprdel 101
                          +fdfl+d+ p++e+
  Pavir.6KG104000.1.p 256 MFDFLMDVSPTEEQ 269
                          **********9975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471139.89E-28153260IPR009072Histone-fold
Gene3DG3DSA:1.10.20.107.1E-32181251IPR009072Histone-fold
PfamPF008083.4E-18188251IPR003958Transcription 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: 333 aa     Download sequence    Send to blast
MDQYSRMINN DEGATSGVTP GSYPLTTYLQ PAALESVPPS SAAGAAFLPV PPASQGAASY  60
PPATMLSSFS NQQSSHTNAF QAATNVGTPA AFALTPYNHQ PEALASVPPS SSSAGSSFFL  120
PPAAGSHGAG AAYQASIPVP LSSQNQAAFQ RFQQLQQHQQ QYQQQQLQAL WTGQLVEAEQ  180
ATDLKVHNLP LARIKKIMKA DEDVKMIAAE VPVVFAKACE MFILELTLRS WLQAEWSKRR  240
TLQRSDVAAA IIANEMFDFL MDVSPTEEQN GGAPPPPQTA TMPATFPMQH VPAFPMYANQ  300
QPAASFMWPP TEYQQQQQQQ RQQQNSDGRQ AE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B3e-40174265394NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1238244RRTLQRS
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.6KG104000.1.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_025822248.11e-157nuclear transcription factor Y subunit C-2-like
SwissprotQ655V54e-46NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBLA0A2T7D4J51e-156A0A2T7D4J5_9POAL; Uncharacterized protein
STRINGPavir.J34239.1.p1e-125(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP157031216
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63470.22e-44nuclear factor Y, subunit C4
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]