PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

CA01g34090

Organism

Capsicum annuum

Taxonomic ID

4072

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Capsiceae; Capsicum

Family

NF-YC

Protein Properties

Length: 118aa MW: 13183.5 Da PI: 10.4115

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
CA01g34090	genome	PEP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	95.5	4.3e-30	18	108	19	101
NF-YC 19 helPlarikkilk.adedvkmisaeaPvllskacelfileltlrswlhaeen.......krrtlkksdiaaavtrtdifdflvdivprdel 101 h+lPlarikki+k + +dvkmis eaP+++skacelfi elt ++w+ +n +r+tl+k d+a+a+ td+fdflv v +d+ CA01g34090 18 HSLPLARIKKIMKkSSDDVKMISGEAPIIFSKACELFIEELTKKAWIIMTKNnnlyekkRRSTLHKEDVASAIIATDVFDFLVTLVTHDDN 108 99********825689************************8543321222222589**********************99976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	2.4E-28	14	90	IPR009072	Histone-fold
SuperFamily	SSF47113	5.74E-21	14	108	IPR009072	Histone-fold
Pfam	PF00808	2.1E-17	19	90	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 118 aa Download sequence Send to blast
MRQAGAYSGI LSRKTGPHSL PLARIKKIMK KSSDDVKMIS GEAPIIFSKA CELFIEELTK 60 KAWIIMTKNN NLYEKKRRST LHKEDVASAI IATDVFDFLV TLVTHDDNKV VIGHIKK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	1e-27	18	103	16	93	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable 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}.
UniProt	Stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters (By similarity). Interacts with REF6 to directly regulate SOC1 transcription in response to flowering signals from photoperiod and gibberellic acid pathways (PubMed:25105952). {ECO:0000250, ECO:0000269\|PubMed:25105952}.
UniProt	Stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters. {ECO:0000250}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: 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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP010260	1e-114	AP010260.1 Solanum lycopersicum DNA, chromosome 8, clone: C08SLe0010M05, complete sequence.
GenBank	HG975520	1e-114	HG975520.1 Solanum lycopersicum chromosome ch08, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019237199.1	3e-53	PREDICTED: nuclear transcription factor Y subunit C-2-like
Swissprot	Q655V5	1e-27	NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
Swissprot	Q8L4B2	1e-27	NFYC9_ARATH; Nuclear transcription factor Y subunit C-9
Swissprot	Q8LCG7	1e-27	NFYC2_ARATH; Nuclear transcription factor Y subunit C-2
TrEMBL	A0A2G3AP43	4e-80	A0A2G3AP43_CAPAN; Nuclear transcription factor Y subunit C-9
STRING	Solyc08g007960.1.1	4e-62	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA12881	17	20

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G56170.2	4e-30	nuclear factor Y, subunit C2

Publications ? help Back to Top
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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Li S, et al. HEAT-INDUCED TAS1 TARGET1 Mediates Thermotolerance via HEAT STRESS TRANSCRIPTION FACTOR A1a-Directed Pathways in Arabidopsis. Plant Cell, 2014. 26(4): p. 1764-1780 [PMID:24728648] Mei X, et al. Identification and characterization of paternal-preferentially expressed gene NF-YC8 in maize endosperm. Mol. Genet. Genomics, 2015. 290(5): p. 1819-31 [PMID:25851237] 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] 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] Baud S, et al. Deciphering the Molecular Mechanisms Underpinning the Transcriptional Control of Gene Expression by Master Transcriptional Regulators in Arabidopsis Seed. Plant Physiol., 2016. 171(2): p. 1099-112 [PMID:27208266] 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] 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] 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] Zhao H, et al. The Arabidopsis thaliana Nuclear Factor Y Transcription Factors. Front Plant Sci, 2016. 7: p. 2045 [PMID:28119722] Gnesutta N, et al. CONSTANS Imparts DNA Sequence Specificity to the Histone Fold NF-YB/NF-YC Dimer. Plant Cell, 2017. 29(6): p. 1516-1532 [PMID:28526714] Bi C,Ma Y,Wang XF,Zhang DP Overexpression of the transcription factor NF-YC9 confers abscisic acid hypersensitivity in Arabidopsis. Plant Mol. Biol., 2017. 95(4-5): p. 425-439 [PMID:28924726] Liu X, et al. Temporal-Specific Interaction of NF-YC and CURLY LEAF during the Floral Transition Regulates Flowering. Plant Physiol., 2018. 177(1): p. 105-114 [PMID:29599268]