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

Solyc03g110860.2.1

Common Name

LOC101247122

Organism

Solanum lycopersicum

Taxonomic ID

4081

Taxonomic Lineage

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

Family

NF-YC

Protein Properties

Length: 231aa MW: 25155.4 Da PI: 5.0362

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc03g110860.2.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	178.7	5.3e-56	40	144	1	102
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdi 88 ql++fw++q ie+++dfknh+lPlarikki+kadedv+misaeaP+l++kacelfilelt+rswlhaeenkrrtl+k+diaaa+trtdi Solyc03g110860.2.1 40 QLQVFWTYQrkeIEQVNDFKNHQLPLARIKKIMKADEDVRMISAEAPILFAKACELFILELTIRSWLHAEENKRRTLQKNDIAAAITRTDI 130 89***998889************************************************************************** PP NF-YC 89 fdflvdivprdelk 102 fdflvdivprde+k Solyc03g110860.2.1 131 FDFLVDIVPRDEIK 144 *********975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	9.39E-34	23	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: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 LQVFWTYQRK EIEQVNDFKN 60 HQLPLARIKK IMKADEDVRM ISAEAPILFA KACELFILEL TIRSWLHAEE NKRRTLQKND 120 IAAAITRTDI FDFLVDIVPR DEIKEEGAGL GPGIVGSTAS 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	1e-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

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Les.9954	0.0	fruit\| leaf

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
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	Solyc03g110860.2.1

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004236362.1	1e-170	nuclear transcription factor Y subunit C-1 isoform X1
Swissprot	Q9SMP0	1e-100	NFYC1_ARATH; Nuclear transcription factor Y subunit C-1
TrEMBL	A0A3Q7GDQ0	1e-169	A0A3Q7GDQ0_SOLLC; Uncharacterized protein
STRING	Solyc03g110860.2.1	1e-170	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA4087	21	43
Representative plant	OGRP315	17	117

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48590.1	9e-98	nuclear factor Y, subunit C1

Link Out ? help Back to Top
Phytozome	Solyc03g110860.2.1
Entrez Gene	101247122

Publications ? help Back to Top
Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505] 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]