PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

NF-YC

Protein Properties

Length: 259aa MW: 28789.3 Da PI: 4.6278

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OGLUM02G05270.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	178.3	7.3e-56	83	187	1	102
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdf 91 ql+ fw++q ie++tdfknh+lPlarikki+kadedv+misaeaPv+++kace+fileltlrsw+h+eenkrrtl+k+diaaa+trtdi+df OGLUM02G05270.1 83 QLREFWANQmeeIEQTTDFKNHSLPLARIKKIMKADEDVRMISAEAPVVFAKACEVFILELTLRSWMHTEENKRRTLQKNDIAAAITRTDIYDF 176 89****9777789*************************************************************************** PP NF-YC 92 lvdivprdelk 102 lvdivprde+k OGLUM02G05270.1 177 LVDIVPRDEMK 187 ******975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	6.2E-34	57	177	IPR009072	Histone-fold
Gene3D	G3DSA:1.10.20.10	2.1E-37	97	169	IPR009072	Histone-fold
Pfam	PF00808	5.3E-21	105	168	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0005737	Cellular Component	cytoplasm
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 259 aa Download sequence Send to blast
MEPSSQPQPV MGVATGGSQA YPPPAAAYPP QAMVPGAPAV VPPGSQPSAP FPTNPAQLSA 60 QHQLVYQQAQ QFHQQLQQQQ QQQLREFWAN QMEEIEQTTD FKNHSLPLAR IKKIMKADED 120 VRMISAEAPV VFAKACEVFI LELTLRSWMH TEENKRRTLQ KNDIAAAITR TDIYDFLVDI 180 VPRDEMKEEG LGLPRVGLPP NVGGAADTYP YYYVPAQQGP GSGMMYGGQQ GHPVTYVWQQ 240 PQEQQEEAPE EQHSLPESS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	1e-59	91	183	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	155	161	RRTLQKN

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB288041	0.0	AB288041.1 Oryza sativa Japonica Group OsHAP5A gene for HAP5 subunit of HAP complex, complete cds.
GenBank	AK243429	0.0	AK243429.1 Oryza sativa Japonica Group cDNA, clone: J100067L16, full insert sequence.
GenBank	AP004113	0.0	AP004113.3 Oryza sativa Japonica Group genomic DNA, chromosome 2, BAC clone:OJ1116_A06.
GenBank	AP004836	0.0	AP004836.2 Oryza sativa Japonica Group genomic DNA, chromosome 2, PAC clone:P0030G02.
GenBank	AP014958	0.0	AP014958.1 Oryza sativa Japonica Group DNA, chromosome 2, cultivar: Nipponbare, complete sequence.
GenBank	CP012610	0.0	CP012610.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 2 sequence.
GenBank	HQ162683	0.0	HQ162683.1 Oryza sativa Japonica Group nuclear transcription factor Y subunit gamma mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015627520.1	0.0	nuclear transcription factor Y subunit C-4-like
Refseq	XP_015627522.1	0.0	nuclear transcription factor Y subunit C-4-like
Swissprot	Q655V5	1e-127	NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBL	A0A0D3F1A7	0.0	A0A0D3F1A7_9ORYZ; Uncharacterized protein
TrEMBL	A0A0D9YMY1	0.0	A0A0D9YMY1_9ORYZ; Uncharacterized protein
TrEMBL	A0A0E0G206	0.0	A0A0E0G206_ORYNI; Uncharacterized protein
TrEMBL	A0A0E0NAH2	0.0	A0A0E0NAH2_ORYRU; Uncharacterized protein
TrEMBL	A2X1E4	0.0	A2X1E4_ORYSI; Uncharacterized protein
TrEMBL	I1NXP3	0.0	I1NXP3_ORYGL; Uncharacterized protein
TrEMBL	Q6H707	0.0	Q6H707_ORYSJ; HAP5 subunit of HAP complex
STRING	OGLUM02G05270.1	0.0	(Oryza glumipatula)
STRING	ORUFI02G05530.1	0.0	(Oryza rufipogon)
STRING	OS02T0170500-01	0.0	(Oryza sativa)
STRING	ONIVA02G05730.1	0.0	(Oryza nivara)
STRING	ORGLA02G0049900.1	0.0	(Oryza glaberrima)
STRING	OBART02G05400.1	0.0	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2703	37	90

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G56170.2	3e-74	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] 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]