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

AT5G63470.1

Common Name

MLE2.10, NFYC4, NF-YC4

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

NF-YC

Protein Properties

Length: 250aa MW: 27032.2 Da PI: 4.7457

Description

nuclear factor Y, subunit C4

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT5G63470.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	178.5	6.2e-56	56	160	1	102
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflvdi 95 ql++fw++q ie+++dfknh+lPlarikki+kadedv+misaeaP+l++kacelfilelt+rswlhaeenkrrtl+k+diaaa+trtdifdflvdi AT5G63470.1 56 QLQMFWTYQrqeIEQVNDFKNHQLPLARIKKIMKADEDVRMISAEAPILFAKACELFILELTIRSWLHAEENKRRTLQKNDIAAAITRTDIFDFLVDI 153 89***998899********************************************************************************* PP NF-YC 96 vprdelk 102 vpr+e+k AT5G63470.1 154 VPREEIK 160 *9975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	1.36E-35	23	150	IPR009072	Histone-fold
Pfam	PF00808	1.8E-20	78	141	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	7.9E-37	79	156	IPR009072	Histone-fold

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009738	Biological Process	abscisic acid-activated signaling pathway
GO:0010468	Biological Process	regulation of gene expression
GO:0048586	Biological Process	regulation of long-day photoperiodism, flowering
GO:0051247	Biological Process	positive regulation of protein metabolic process
GO:2000905	Biological Process	negative regulation of starch metabolic process
GO:0005634	Cellular Component	nucleus
GO:0005829	Cellular Component	cytosol
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005515	Molecular Function	protein binding
GO:0046982	Molecular Function	protein heterodimerization activity

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000293	anatomy	guard cell
PO:0025195	anatomy	pollen tube cell
PO:0025281	anatomy	pollen
PO:0001016	developmental stage	L mature pollen stage
PO:0001017	developmental stage	M germinated pollen stage

Sequence ? help Back to Top
Protein Sequence Length: 250 aa Download sequence Send to blast
MDNNNNNNNQ QPPPTSVYPP GSAVTTVIPP PPSGSASIVT GGGATYHHLL QQQQQQLQMF 60 WTYQRQEIEQ VNDFKNHQLP LARIKKIMKA DEDVRMISAE APILFAKACE LFILELTIRS 120 WLHAEENKRR TLQKNDIAAA ITRTDIFDFL VDIVPREEIK EEEDAASALG GGGMVAPAAS 180 GVPYYYPPMG QPAVPGGMMI GRPAMDPSGV YAQPPSQAWQ SVWQNSAGGG DDVSYGSGGS 240 SGHGNLDSQG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	6e-55	64	156	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	128	134	RRTLQKN

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.28997	0.0	floral meristem\| flower\| root

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	186532702	0.0
Genevisible	247388_s_at	1e-84
Expression Atlas	AT5G63470	-
AtGenExpress	AT5G63470	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Ubiquitous. Present in etiolated seedlings. {ECO:0000269\|PubMed:11250072, ECO:0000269\|PubMed:17322342}.

Functional Description ? help Back to Top
Source	Description
UniProt	Stimulates 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}.

Function -- GeneRIF ? help Back to Top
QQS protein binds to the transcriptional regulator AtNF-YC4 (Arabidopsis nuclear factor Y, subunit C4). [PMID: 26554020] expression with QQS reduces susceptibility to pathogens and pests [PMID: 29878511]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT5G63470.1

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

Interaction ? help Back to Top
Source	Intact With
BioGRID	AT1G09030, AT1G17590, AT1G21970, AT1G30500, AT1G72830
IntAct	Search Q9FMV5

Phenotype -- Disruption Phenotype ? help Back to Top
Source	Description
UniProt	DISRUPTION PHENOTYPE: Altered response to abscisic acid (ABA). {ECO:0000269\|PubMed:17322342}.

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT5G63470

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY072402	0.0	AY072402.1 Arabidopsis thaliana transcription factor Hap5a-like protein (At5g63470) mRNA, complete cds.
GenBank	BT000218	0.0	BT000218.1 Arabidopsis thaliana transcription factor Hap5a-like protein (At5g63470) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001032130.1	0.0	nuclear factor Y, subunit C4
Refseq	NP_201152.1	0.0	nuclear factor Y, subunit C4
Swissprot	Q9FMV5	0.0	NFYC4_ARATH; Nuclear transcription factor Y subunit C-4
TrEMBL	A0A384KX14	0.0	A0A384KX14_ARATH; NF-YC4
TrEMBL	B9DG64	0.0	B9DG64_ARATH; AT5G63470 protein
STRING	AT5G63470.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM478	28	160
Representative plant	OGRP315	17	117

Link Out ? help Back to Top
Phytozome	AT5G63470.1
Entrez Gene	836466
iHOP	AT5G63470
wikigenes	AT5G63470

Publications ? help Back to Top
Taira T, et al. Cell cycle-dependent switch of up-and down-regulation of human hsp70 gene expression by interaction between c-Myc and CBF/NF-Y. J. Biol. Chem., 1999. 274(34): p. 24270-9 [PMID:10446203] Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Gusmaroli G,Tonelli C,Mantovani R Regulation of the CCAAT-Binding NF-Y subunits in Arabidopsis thaliana. Gene, 2001. 264(2): p. 173-85 [PMID:11250072] Gusmaroli G,Tonelli C,Mantovani R Regulation of novel members of the Arabidopsis thaliana CCAAT-binding nuclear factor Y subunits. Gene, 2002. 283(1-2): p. 41-8 [PMID:11867211] Yamada K, et al. Empirical analysis of transcriptional activity in the Arabidopsis genome. Science, 2003. 302(5646): p. 842-6 [PMID:14593172] Wenkel S, et al. CONSTANS and the CCAAT box binding complex share a functionally important domain and interact to regulate flowering of Arabidopsis. Plant Cell, 2006. 18(11): p. 2971-84 [PMID:17138697] Warpeha KM, et al. The GCR1, GPA1, PRN1, NF-Y signal chain mediates both blue light and abscisic acid responses in Arabidopsis. Plant Physiol., 2007. 143(4): p. 1590-600 [PMID:17322342] Wang Y, et al. Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis. Plant Physiol., 2008. 148(3): p. 1201-11 [PMID:18775970] Kumimoto RW,Zhang Y,Siefers N,Holt BF NF-YC3, NF-YC4 and NF-YC9 are required for CONSTANS-mediated, photoperiod-dependent flowering in Arabidopsis thaliana. Plant J., 2010. 63(3): p. 379-91 [PMID:20487380] Causier B,Ashworth M,Guo W,Davies B The TOPLESS interactome: a framework for gene repression in Arabidopsis. Plant Physiol., 2012. 158(1): p. 423-38 [PMID:22065421] Hackenberg D, et al. Studies on differential nuclear translocation mechanism and assembly of the three subunits of the Arabidopsis thaliana transcription factor NF-Y. Mol Plant, 2012. 5(4): p. 876-88 [PMID:22199235] Calvenzani V, et al. Interactions and CCAAT-binding of Arabidopsis thaliana NF-Y subunits. PLoS ONE, 2012. 7(8): p. e42902 [PMID:22912760] Efroni I, et al. Regulation of leaf maturation by chromatin-mediated modulation of cytokinin responses. Dev. Cell, 2013. 24(4): p. 438-45 [PMID:23449474] Li L, et al. QQS orphan gene regulates carbon and nitrogen partitioning across species via NF-YC interactions. Proc. Natl. Acad. Sci. U.S.A., 2015. 112(47): p. 14734-9 [PMID:26554020] 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] 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] 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]