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 RrC9847_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family NF-YC
Protein Properties Length: 175aa    MW: 19482.1 Da    PI: 5.2735
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC9847_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC1802.2e-56581621102
       NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflvdiv 96 
                 ql++fw++q   ie+++dfknh+lPlarikki+kadedv+misaeaP+l++kacelfilelt+rswlhaeenkrrtl+k+diaaa+trtdifdflvdiv
  RrC9847_p1  58 QLQMFWNYQrkeIEQVNDFKNHQLPLARIKKIMKADEDVRMISAEAPILFAKACELFILELTIRSWLHAEENKRRTLQKNDIAAAITRTDIFDFLVDIV 156
                 89*****998899************************************************************************************** PP

       NF-YC  97 prdelk 102
                 pr+e+k
  RrC9847_p1 157 PREEIK 162
                 **9975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471133.25E-3444152IPR009072Histone-fold
PfamPF008088.9E-2180143IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene3DG3DSA:1.10.20.103.6E-3781158IPR009072Histone-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: 175 aa     Download sequence    Send to blast
MDNNNNNQQP PPPTSVYPPA SASTAIPPPP SGSTPIIPGG GGGGGGSYHH LLQQQLQQLQ  60
MFWNYQRKEI EQVNDFKNHQ LPLARIKKIM KADEDVRMIS AEAPILFAKA CELFILELTI  120
RSWLHAEENK RRTLQKNDIA AAITRTDIFD FLVDIVPREE IKEEEEAALG SLVAS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B2e-5566158395NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1130136RRTLQKN
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC7971431e-174KC797143.1 Brassica napus transcription factor subunit NF-YC4 (NF-YC4) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018462985.13e-88PREDICTED: nuclear transcription factor Y subunit C-4-like
SwissprotQ9FMV59e-88NFYC4_ARATH; Nuclear transcription factor Y subunit C-4
TrEMBLA0A384KX142e-85A0A384KX14_ARATH; NF-YC4
TrEMBLB9DG642e-85B9DG64_ARATH; AT5G63470 protein
STRINGAT5G63470.14e-86(Arabidopsis thaliana)
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-70nuclear 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]