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

485217

Common Name

ARALYDRAFT_485217

Organism

Arabidopsis lyrata

Taxonomic ID

81972

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: 233aa MW: 25126.4 Da PI: 4.832

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
485217	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	178.3	7.4e-56	44	148	1	102
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflvdivprde 100 ql+ fw++q ie+++dfknh+lPlarikki+kadedv+misaeaP+l++kacelfilelt+rswlhaeenkrrtl+k+diaaa+trtdifdflvdivprde 485217 44 QLQLFWTYQrqeIEQVNDFKNHQLPLARIKKIMKADEDVRMISAEAPILFAKACELFILELTIRSWLHAEENKRRTLQKNDIAAAITRTDIFDFLVDIVPRDE 146 79***998899***************************************************************************************9 PP NF-YC 101 lk 102 +k 485217 147 IK 148 75 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	5.87E-34	27	138	IPR009072	Histone-fold
Pfam	PF00808	1.6E-20	66	129	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	6.8E-37	67	144	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:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 233 aa Download sequence Send to blast
MDTNNNQQPP PSAAGIPPPP PGTTISAAGG GASYHHLLQQ QQQQLQLFWT YQRQEIEQVN 60 DFKNHQLPLA RIKKIMKADE DVRMISAEAP ILFAKACELF ILELTIRSWL HAEENKRRTL 120 QKNDIAAAIT RTDIFDFLVD IVPRDEIKDE AAVLGGGMVV APTASGVPYY YPPMGQPAGP 180 GGMMIGRPAM DPSGVYVQPP SQAWQSVWQT SPGTGDDVSY GSGGSTGLDG QG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	5e-55	52	144	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	116	122	RRTLQKN

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. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	485217

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	AL133315	0.0	AL133315.1 Arabidopsis thaliana DNA chromosome 3, BAC clone T8P19.
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.
GenBank	CP002686	0.0	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020880104.1	1e-172	nuclear transcription factor Y subunit C-1
Swissprot	Q9SMP0	1e-132	NFYC1_ARATH; Nuclear transcription factor Y subunit C-1
TrEMBL	D7LRY6	1e-170	D7LRY6_ARALL; Uncharacterized protein
STRING	fgenesh2_kg.5__1209__AT3G48590.1	1e-171	(Arabidopsis lyrata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM478	28	160

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48590.1	1e-109	nuclear factor Y, subunit C1

Link Out ? help Back to Top
Phytozome	485217
Entrez Gene	9311982

Publications ? help Back to Top
Shi H,Chan ZL AtHAP5A modulates freezing stress resistance in Arabidopsis independent of the CBF pathway. Plant Signal Behav, 2015. [PMID:24831307] 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]