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 Cagra.0248s0024.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family NF-YC
Protein Properties Length: 260aa    MW: 27736 Da    PI: 4.7457
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.0248s0024.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC178.46.8e-56601641102
                NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtd 87 
                          ql++fw++q   ie+++dfknh+lPlarikki+kadedv+misaeaP+l++kacelfilelt+rswlhaeenkrrtl+k+diaaa+trtd
  Cagra.0248s0024.1.p  60 QLQMFWTYQrqeIEQVNDFKNHQLPLARIKKIMKADEDVRMISAEAPILFAKACELFILELTIRSWLHAEENKRRTLQKNDIAAAITRTD 149
                          89*****998899***************************************************************************** PP

                NF-YC  88 ifdflvdivprdelk 102
                          ifdflvdivpr+e+k
  Cagra.0248s0024.1.p 150 IFDFLVDIVPREEIK 164
                          ***********9975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471139.22E-3448154IPR009072Histone-fold
PfamPF008081.9E-2082145IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene3DG3DSA:1.10.20.108.4E-3783160IPR009072Histone-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: 260 aa     Download sequence    Send to blast
MDNNNNNNNN QPPPPTSVYP PNSAVTTVIP PPPPGSTSII AGGGGGGATY HHLLQQQQQQ  60
LQMFWTYQRQ EIEQVNDFKN HQLPLARIKK IMKADEDVRM ISAEAPILFA KACELFILEL  120
TIRSWLHAEE NKRRTLQKND IAAAITRTDI FDFLVDIVPR EEIKEEEDAA AAAAALGGGG  180
MVPQAASGVP YYYPPMGQPA VPGGMMIGRP AMDPSGVYAQ PPSQAWQSVW QNSAGGGGGD  240
DVSYGSGGSS GHGNLDSQG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B4e-5568160395NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1132138RRTLQKN
Functional Description ? help Back to Top
Source Description
UniProtStimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters (By similarity). Involved in the abscisic acid (ABA) signaling pathway. {ECO:0000250, ECO:0000269|PubMed:17322342}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.0248s0024.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0724020.0AY072402.1 Arabidopsis thaliana transcription factor Hap5a-like protein (At5g63470) mRNA, complete cds.
GenBankBT0002180.0BT000218.1 Arabidopsis thaliana transcription factor Hap5a-like protein (At5g63470) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001032130.11e-143nuclear factor Y, subunit C4
RefseqNP_201152.11e-143nuclear factor Y, subunit C4
SwissprotQ9FMV51e-144NFYC4_ARATH; Nuclear transcription factor Y subunit C-4
TrEMBLA0A384KX141e-141A0A384KX14_ARATH; NF-YC4
TrEMBLB9DG641e-141B9DG64_ARATH; AT5G63470 protein
STRINGCagra.0248s0024.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM47828160
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63470.21e-114nuclear factor Y, subunit C4
Publications ? help Back to Top
  1. Hwang YH, et al.
    Functional conservation of rice OsNF-YB/YC and Arabidopsis AtNF-YB/YC proteins in the regulation of flowering time.
    Plant Cell Rep., 2016. 35(4): p. 857-65
    [PMID:26754793]
  2. Liu X, et al.
    The NF-YC-RGL2 module integrates GA and ABA signalling to regulate seed germination in Arabidopsis.
    Nat Commun, 2016. 7: p. 12768
    [PMID:27624486]
  3. Myers ZA, et al.
    NUCLEAR FACTOR Y, Subunit C (NF-YC) Transcription Factors Are Positive Regulators of Photomorphogenesis in Arabidopsis thaliana.
    PLoS Genet., 2016. 12(9): p. e1006333
    [PMID:27685091]
  4. Tang Y, et al.
    Arabidopsis NF-YCs Mediate the Light-Controlled Hypocotyl Elongation via Modulating Histone Acetylation.
    Mol Plant, 2017. 10(2): p. 260-273
    [PMID:27876642]
  5. Zhao H, et al.
    The Arabidopsis thaliana Nuclear Factor Y Transcription Factors.
    Front Plant Sci, 2016. 7: p. 2045
    [PMID:28119722]
  6. Qi M, et al.
    QQS orphan gene and its interactor NF-YC4 reduce susceptibility to pathogens and pests.
    Plant Biotechnol. J., 2019. 17(1): p. 252-263
    [PMID:29878511]