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

Thecc1EG016221t1

Common Name

TCM_016221

Organism

Theobroma cacao

Taxonomic ID

3641

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma

Family

NF-YC

Protein Properties

Length: 123aa MW: 13248.2 Da PI: 7.3614

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thecc1EG016221t1	genome	CGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	112	3.3e-35	22	103	19	99
NF-YC 19 helPlarikkilk.adedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflvdivprd 99 h+lPlarikki+k + +dvkmis eaP+++skacelfi elt rsw+ + + krrtl+k d+++av tdifdflv+ v +d Thecc1EG016221t1 22 HSLPLARIKKIMKkSGDDVKMISGEAPIVFSKACELFIKELTQRSWMVTMQGKRRTLNKEDVTSAVVATDIFDFLVNLVSED 103 99********825689*********************************************************99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	8.53E-27	15	96	IPR009072	Histone-fold
Gene3D	G3DSA:1.10.20.10	1.1E-30	19	87	IPR009072	Histone-fold
Pfam	PF00808	1.7E-21	23	87	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: 123 aa Download sequence Send to blast
MRQAGTYSGI LSGGISGRTG PHSLPLARIK KIMKKSGDDV KMISGEAPIV FSKACELFIK 60 ELTQRSWMVT MQGKRRTLNK EDVTSAVVAT DIFDFLVNLV SEDSGDTVDA TPLEMDTFTS 120 SS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	7e-33	22	100	16	93	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

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}.

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}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007040181.2	3e-84	PREDICTED: nuclear transcription factor Y subunit C-2
Swissprot	Q655V5	3e-32	NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBL	A0A061G6A1	7e-84	A0A061G6A1_THECC; Nuclear transcription factor Y subunit C-9
STRING	EOY24682	1e-84	(Theobroma cacao)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM17140	9	11

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G54830.3	3e-34	nuclear factor Y, subunit C3

Link Out ? help Back to Top
Phytozome	Thecc1EG016221t1
Entrez Gene	18606493

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] Motamayor JC, et al. The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color. Genome Biol., 2013. 14(6): p. r53 [PMID:23731509] 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]