PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Previous version: v3.0 v4.0

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

PGSC0003DMP400026764

Common Name

LOC102597101

Organism

Solanum tuberosum

Taxonomic ID

4113

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum

Family

NF-YC

Protein Properties

Length: 231aa MW: 25263.5 Da PI: 4.732

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400026764	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	179.2	3.7e-56	40	144	1	102
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrt 86 ql++fw++q ie+++dfknh+lPlarikki+kadedv+misaeaP+l++kacelfilelt+rswlhaeenkrrtl+k+diaaa+trt PGSC0003DMP400026764 40 QLQMFWTYQrqeIEQVNDFKNHQLPLARIKKIMKADEDVRMISAEAPILFAKACELFILELTIRSWLHAEENKRRTLQKNDIAAAITRT 128 89***998899************************************************************************ PP NF-YC 87 difdflvdivprdelk 102 difdflvdivprde+k PGSC0003DMP400026764 129 DIFDFLVDIVPRDEIK 144 ***********975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	4.02E-34	24	134	IPR009072	Histone-fold
Pfam	PF00808	1.5E-20	62	125	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	6.6E-37	63	140	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: 231 aa Download sequence Send to blast
MENSPQQSAA NAAAAAAAAQ SAGYPTQPPY HHLLQQQQQQ LQMFWTYQRQ EIEQVNDFKN 60 HQLPLARIKK IMKADEDVRM ISAEAPILFA KACELFILEL TIRSWLHAEE NKRRTLQKND 120 IAAAITRTDI FDFLVDIVPR DEIKEEDAGL GPGMVGSTAS GVPYYYPPMG QPAPPGVMMG 180 RPAMPGVDPS MYVQPPPPPS QAWQSVWQAA EDNSYAGGGS NGQGNLDGQS *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	4e-55	48	140	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	112	118	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	PGSC0003DMP400026764

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	HG975442	0.0	HG975442.1 Solanum pennellii chromosome ch03, complete genome.
GenBank	HG975515	0.0	HG975515.1 Solanum lycopersicum chromosome ch03, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006351508.1	1e-170	PREDICTED: nuclear transcription factor Y subunit C-1-like isoform X1
Refseq	XP_006351509.1	1e-170	PREDICTED: nuclear transcription factor Y subunit C-1-like isoform X2
Swissprot	Q9SMP0	1e-100	NFYC1_ARATH; Nuclear transcription factor Y subunit C-1
TrEMBL	M1B8B6	1e-169	M1B8B6_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400039470	1e-170	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA4087	21	43

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48590.1	2e-98	nuclear factor Y, subunit C1

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400026764
Entrez Gene	102597101

Publications ? help Back to Top
Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474] 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]