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

AT3G05690.1

Common Name

ATHAP2B, F18C1.4, HAP2B, NFYA2, NF-YA2, UNE8

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-YA

Protein Properties

Length: 295aa MW: 32139.2 Da PI: 10.0468

Description

nuclear factor Y, subunit A2

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT3G05690.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	CBFB_NFYA	94.3	1.5e-29	136	195	2	58
CBFB_NFYA 2 eplYVNaKQyqrIlkRRqkRaklee...ekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 +++YVN+KQy++I++RRq+Rak+++ +kkl++++rkpy+h+SRh hAlrRpRgsgGrF AT3G05690.1 136 STIYVNSKQYHGIIRRRQSRAKAAAvldQKKLSSRCRKPYMHHSRHLHALRRPRGSGGRF 195 78********************9999*****************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00521	1.3E-31	133	198	IPR001289	Nuclear transcription factor Y subunit A
PROSITE profile	PS51152	35.959	134	198	IPR001289	Nuclear transcription factor Y subunit A
PRINTS	PR00616	4.6E-21	137	159	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF02045	6.2E-24	137	195	IPR001289	Nuclear transcription factor Y subunit A
PRINTS	PR00616	4.6E-21	172	195	IPR001289	Nuclear transcription factor Y subunit A

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009567	Biological Process	double fertilization forming a zygote and endosperm
GO:0016602	Cellular Component	CCAAT-binding factor complex
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000037	anatomy	shoot apex
PO:0000230	anatomy	inflorescence meristem
PO:0000293	anatomy	guard cell
PO:0009005	anatomy	root
PO:0009009	anatomy	plant embryo
PO:0009010	anatomy	seed
PO:0009025	anatomy	vascular leaf
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0025022	anatomy	collective leaf structure
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001081	developmental stage	mature plant embryo stage
PO:0004507	developmental stage	plant embryo bilateral stage
PO:0007115	developmental stage	LP.04 four leaves visible stage
PO:0007131	developmental stage	seedling development stage
PO:0007611	developmental stage	petal differentiation and expansion stage

Sequence ? help Back to Top
Protein Sequence Length: 295 aa Download sequence Send to blast
MAMQTVREGL FSAPQTSWWT AFGSQPLAPE SLAGDSDSFA GVKVGSVGET GQRVDKQSNS 60 ATHLAFSLGD VKSPRLVPKP HGATFSMQSP CLELGFSQPP IYTKYPYGEQ QYYGVVSAYG 120 SQSRVMLPLN METEDSTIYV NSKQYHGIIR RRQSRAKAAA VLDQKKLSSR CRKPYMHHSR 180 HLHALRRPRG SGGRFLNTKS QNLENSGTNA KKGDGSMQIQ SQPKPQQSNS QNSEVVHPEN 240 GTMNLSNGLN VSGSEVTSMN YFLSSPVHSL GGMVMPSKWI AAAAAMDNGC CNFKT

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4g91_A	3e-16	135	196	2	60	HAPB protein
4g92_A	3e-16	135	196	2	60	HAPB protein
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.19718	0.0	root

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	42563529	0.0
Genevisible	258890_at	0.0
Expression Atlas	AT3G05690	-
AtGenExpress	AT3G05690	-
ATTED-II	AT3G05690	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Ubiquitous. {ECO:0000269\|PubMed:11250072, ECO:0000269\|PubMed:9662544}.

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes a subunit of CCAAT-binding complex, binds to CCAAT box motif present in some plant promoter sequences. One of three members of this class (HAP2A, HAP2B, HAP2C), it is expressed in vegetative and reproductive tissues.
UniProt	Stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters. {ECO:0000250}.

Function -- GeneRIF ? help Back to Top
The miR169 family regulates stress-induced flowering by repressing the AtNF-YA transcription factor, which in turn reduces the expression of FLOWERING LOCUS C (FLC), allowing for the expression of FLC target genes [PMID: 24336445] The authors identified a regulatory node involving the particular miR169defg isoform and NF-YA2 and NF-YA10 genes that acts in the control of primary root growth. [PMID: 24533947] Findings showed leaf development was regulated by NF-YA2 and NF-YA10 through the auxin-signaling pathway and may provide a new insight into the genetic engineering of vegetables biomass and crop productivity. [PMID: 28469131]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT3G05690.1

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

Regulation -- MicroRNA ? help Back to Top
Source	Description
miRTarBase	Regulated by ath-miR169a

Interaction ? help Back to Top
Source	Intact With
BioGRID	AT3G03450, AT3G48590, AT4G14540, AT5G15840, AT5G50480, AT5G63470, AT1G08970, AT1G14920, AT1G54830, AT1G66350

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT3G05690

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT026062	0.0	BT026062.1 Arabidopsis thaliana At3g05690 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_187220.1	0.0	nuclear factor Y, subunit A2
Swissprot	Q9M9X4	0.0	NFYA2_ARATH; Nuclear transcription factor Y subunit A-2
TrEMBL	Q147N1	0.0	Q147N1_ARATH; At3g05690
STRING	AT3G05690.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3008	27	67
Representative plant	OGRP5136	11	22

Link Out ? help Back to Top
Phytozome	AT3G05690.1
Entrez Gene	819738
iHOP	AT3G05690
wikigenes	AT3G05690

Publications ? help Back to Top
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] Stevens R, et al. A CDC45 homolog in Arabidopsis is essential for meiosis, as shown by RNA interference-induced gene silencing. Plant Cell, 2004. 16(1): p. 99-113 [PMID:14660803] Contento AL,Kim SJ,Bassham DC Transcriptome profiling of the response of Arabidopsis suspension culture cells to Suc starvation. Plant Physiol., 2004. 135(4): p. 2330-47 [PMID:15310832] Pagnussat GC, et al. Genetic and molecular identification of genes required for female gametophyte development and function in Arabidopsis. Development, 2005. 132(3): p. 603-14 [PMID:15634699] Lobbes D,Rallapalli G,Schmidt DD,Martin C,Clarke J SERRATE: a new player on the plant microRNA scene. EMBO Rep., 2006. 7(10): p. 1052-8 [PMID:16977334] M Genome-wide analysis of the Arabidopsis leaf transcriptome reveals interaction of phosphate and sugar metabolism. Plant Physiol., 2007. 143(1): p. 156-71 [PMID:17085508] Bi YM,Wang RL,Zhu T,Rothstein SJ Global transcription profiling reveals differential responses to chronic nitrogen stress and putative nitrogen regulatory components in Arabidopsis. BMC Genomics, 2007. 8: p. 281 [PMID:17705847] Peng M,Bi YM,Zhu T,Rothstein SJ Genome-wide analysis of Arabidopsis responsive transcriptome to nitrogen limitation and its regulation by the ubiquitin ligase gene NLA. Plant Mol. Biol., 2007. 65(6): p. 775-97 [PMID:17885809] 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] Leyva-Gonz Functional and transcriptome analysis reveals an acclimatization strategy for abiotic stress tolerance mediated by Arabidopsis NF-YA family members. PLoS ONE, 2012. 7(10): p. e48138 [PMID:23118940] Xu MY, et al. Stress-induced early flowering is mediated by miR169 in Arabidopsis thaliana. J. Exp. Bot., 2014. 65(1): p. 89-101 [PMID:24336445] Sorin C, et al. A miR169 isoform regulates specific NF-YA targets and root architecture in Arabidopsis. New Phytol., 2014. 202(4): p. 1197-211 [PMID:24533947] Hou X, et al. Nuclear factor Y-mediated H3K27me3 demethylation of the SOC1 locus orchestrates flowering responses of Arabidopsis. Nat Commun, 2014. 5: p. 4601 [PMID:25105952] Sato H, et al. Arabidopsis DPB3-1, a DREB2A interactor, specifically enhances heat stress-induced gene expression by forming a heat stress-specific transcriptional complex with NF-Y subunits. Plant Cell, 2014. 26(12): p. 4954-73 [PMID:25490919] Zhao H, et al. The Arabidopsis thaliana Nuclear Factor Y Transcription Factors. Front Plant Sci, 2016. 7: p. 2045 [PMID:28119722] Nasim Z,Fahim M,Ahn JH Possible Role of MADS AFFECTING FLOWERING 3 and B-BOX DOMAIN PROTEIN 19 in Flowering Time Regulation of Arabidopsis Mutants with Defects in Nonsense-Mediated mRNA Decay. Front Plant Sci, 2017. 8: p. 191 [PMID:28261246] Zhang M,Hu X,Zhu M,Xu M,Wang L Transcription factors NF-YA2 and NF-YA10 regulate leaf growth via auxin signaling in Arabidopsis. Sci Rep, 2017. 7(1): p. 1395 [PMID:28469131] Edwards D,Murray JA,Smith AG Multiple genes encoding the conserved CCAAT-box transcription factor complex are expressed in Arabidopsis. Plant Physiol., 1998. 117(3): p. 1015-22 [PMID:9662544]