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

AT3G48590.1

Common Name

ATHAP5A, HAP5A, NFYC1, NF-YC1, T8P19.100

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: 234aa MW: 25328.5 Da PI: 4.832

Description

nuclear factor Y, subunit C1

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT3G48590.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	178.2	7.5e-56	43	147	1	102
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflvdi 95 ql+ fw++q ie+++dfknh+lPlarikki+kadedv+misaeaP+l++kacelfilelt+rswlhaeenkrrtl+k+diaaa+trtdifdflvdi AT3G48590.1 43 QLQLFWTYQrqeIEQVNDFKNHQLPLARIKKIMKADEDVRMISAEAPILFAKACELFILELTIRSWLHAEENKRRTLQKNDIAAAITRTDIFDFLVDI 140 79***998899********************************************************************************* PP NF-YC 96 vprdelk 102 vprde+k AT3G48590.1 141 VPRDEIK 147 **975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	6.04E-34	26	137	IPR009072	Histone-fold
Pfam	PF00808	1.6E-20	65	128	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	6.9E-37	66	143	IPR009072	Histone-fold

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:0016602	Cellular Component	CCAAT-binding factor complex
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:0009005	anatomy	root
PO:0009025	anatomy	vascular leaf
PO:0009046	anatomy	flower
PO:0007131	developmental stage	seedling development stage

Sequence ? help Back to Top
Protein Sequence Length: 234 aa Download sequence Send to blast
MDTNNQQPPP SAAGIPPPPP GTTISAAGGG ASYHHLLQQQ QQQLQLFWTY QRQEIEQVND 60 FKNHQLPLAR IKKIMKADED VRMISAEAPI LFAKACELFI LELTIRSWLH AEENKRRTLQ 120 KNDIAAAITR TDIFDFLVDI VPRDEIKDEA AVLGGGMVVA PTASGVPYYY PPMGQPAGPG 180 GMMIGRPAMD PNGVYVQPPS QAWQSVWQTS TGTGDDVSYG SGGSSGQGNL DGQG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	4e-55	51	143	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	115	121	RRTLQKN

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.23009	0.0	flower

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	186510803	0.0
Genevisible	247388_s_at	5e-68
Expression Atlas	AT3G48590	-
AtGenExpress	AT3G48590	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Ubiquitous. Present in etiolated seedlings. {ECO:0000269\|PubMed:11250072, ECO:0000269\|PubMed:17322342, ECO:0000269\|PubMed:9662544}.

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes a protein with similarity to a subunit of the CCAAT promoter motif binding complex of yeast.One of two members of this class (HAP5A) and 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
AtHAP5A modulates freezing stress resistance in Arabidopsis through binding to the CCAAT motif of AtXTH21. [PMID: 24739069]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT3G48590.1

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

Interaction ? help Back to Top
Source	Intact With
BioGRID	AT3G53340, AT4G14540, AT5G06510, AT5G12840, AT5G15840, AT5G47640, AT5G47670, AT1G09030, AT1G17590, AT1G21970, AT1G28050, AT1G30500, AT1G72830
IntAct	Search Q9SMP0

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT3G48590

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY092997	0.0	AY092997.1 Arabidopsis thaliana transcription factor Hap5a (At3g48590) mRNA, complete cds.
GenBank	BT001206	0.0	BT001206.1 Arabidopsis thaliana transcription factor Hap5a (At3g48590) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_190428.1	1e-173	nuclear factor Y, subunit C1
Swissprot	Q9SMP0	1e-174	NFYC1_ARATH; Nuclear transcription factor Y subunit C-1
TrEMBL	A0A178V5Y7	1e-172	A0A178V5Y7_ARATH; NF-YC1
STRING	AT3G48590.1	1e-173	(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	AT3G48590.1
Entrez Gene	824019
iHOP	AT3G48590
wikigenes	AT3G48590

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] Ben-Naim O, et al. The CCAAT binding factor can mediate interactions between CONSTANS-like proteins and DNA. Plant J., 2006. 46(3): p. 462-76 [PMID:16623906] 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] Yamamoto A, et al. Arabidopsis NF-YB subunits LEC1 and LEC1-LIKE activate transcription by interacting with seed-specific ABRE-binding factors. Plant J., 2009. 58(5): p. 843-56 [PMID:19207209] 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] Shi H, et al. AtHAP5A modulates freezing stress resistance in Arabidopsis through binding to CCAAT motif of AtXTH21. New Phytol., 2014. 203(2): p. 554-67 [PMID:24739069] Shi H,Chan ZL AtHAP5A modulates freezing stress resistance in Arabidopsis independent of the CBF pathway. Plant Signal Behav, 2015. [PMID:24831307] 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] Shi H,Chan ZL AtHAP5A modulates freezing stress resistance in Arabidopsis independent of the CBF pathway. Plant Signal Behav, 2014. 9(7): p. e29109 [PMID:25763489] 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] 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]