PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID evm_27.model.AmTr_v1.0_scaffold00004.302
Common NameAMTR_s00004p00270830, LOC18421502
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family NF-YC
Protein Properties Length: 281aa    MW: 30384.4 Da    PI: 6.301
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00004.302genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC1802.2e-56871911102
                                     NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlha 66 
                                               ql++fw++q   ie++tdfknh+lPlarikki+kadedv+misaeaPv+++kace+fileltlrsw+h+
  evm_27.model.AmTr_v1.0_scaffold00004.302  87 QLQAFWANQiqeIEQTTDFKNHSLPLARIKKIMKADEDVRMISAEAPVIFAKACEMFILELTLRSWIHT 155
                                               89******98889******************************************************** PP

                                     NF-YC  67 eenkrrtlkksdiaaavtrtdifdflvdivprdelk 102
                                               eenkrrtl+k+diaaa+trtdifdflvdivprdelk
  evm_27.model.AmTr_v1.0_scaffold00004.302 156 EENKRRTLQKNDIAAAITRTDIFDFLVDIVPRDELK 191
                                               *********************************975 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471135.87E-3477181IPR009072Histone-fold
PfamPF008082.5E-21109172IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene3DG3DSA:1.10.20.101.3E-37110187IPR009072Histone-fold
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: 281 aa     Download sequence    Send to blast
MDQSGQQQQH QPQQPVMGVV SGAAQIAYAA PPYQPANMVG APGAAPSPVG AAGQPPSFPT  60
SPAQLMAQHQ LACQHLQHHH QQQQAQQLQA FWANQIQEIE QTTDFKNHSL PLARIKKIMK  120
ADEDVRMISA EAPVIFAKAC EMFILELTLR SWIHTEENKR RTLQKNDIAA AITRTDIFDF  180
LVDIVPRDEL KEEGGLGVGR AGLPGGPSDA MAPYYYVSPQ QVPQVGGAPG MIVGKPVVDQ  240
AVAAALYGPR PPVAYVPWQQ PQAPQQTQGQ TQQQQMPDSG *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B2e-6095187395NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1159165RRTLQKN
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}.
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_020532226.10.0nuclear transcription factor Y subunit C-2 isoform X1
RefseqXP_020532230.10.0nuclear transcription factor Y subunit C-2 isoform X2
SwissprotQ655V51e-83NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBLW1NEF60.0W1NEF6_AMBTC; Uncharacterized protein
STRINGERM937860.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP31517117
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G56170.21e-68nuclear 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. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]
  3. 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]