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

PGSC0003DMP400015809

Common Name

LOC102577612

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: 25847.3 Da PI: 6.3023

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400015809	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	177	1.9e-55	52	155	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrt 86 ql++fw++q ie++tdfknh+lPlarikki+kadedv+misaeaPv++++ace+fileltlr+w+h+eenkrrtl+k+diaaa+trt PGSC0003DMP400015809 52 QLQTFWANQyqeIEHVTDFKNHSLPLARIKKIMKADEDVRMISAEAPVVFARACEMFILELTLRAWNHTEENKRRTLQKNDIAAAITRT 140 89****99999************************************************************************ PP NF-YC 87 difdflvdivprdel 101 difdflvdivpr++l PGSC0003DMP400015809 141 DIFDFLVDIVPREDL 155 **********987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	6.89E-34	41	146	IPR009072	Histone-fold
Pfam	PF00808	2.1E-22	74	137	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	2.2E-38	75	152	IPR009072	Histone-fold

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0005829	Cellular Component	cytosol
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 231 aa Download sequence Send to blast
MDHHGNGQPP VSAGAIQSPQ AAGLSASSAQ MAQHQLAYQH IHQQQQQQLQ QQLQTFWANQ 60 YQEIEHVTDF KNHSLPLARI KKIMKADEDV RMISAEAPVV FARACEMFIL ELTLRAWNHT 120 EENKRRTLQK NDIAAAITRT DIFDFLVDIV PREDLKDEVL ATIPRGTLPV GGPTEGLPFY 180 YGMPPQSAQQ IGAPGMYMGK PVDQALYAQQ PRPYMAQPIW PQQQQPPSDS *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	3e-61	60	152	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	124	130	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 (By similarity). Interacts with REF6 to directly regulate SOC1 transcription in response to flowering signals from photoperiod and gibberellic acid pathways (PubMed:25105952). {ECO:0000250, ECO:0000269\|PubMed:25105952}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400015809

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	HG975440	0.0	HG975440.1 Solanum pennellii chromosome ch01, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006349233.1	1e-170	PREDICTED: uncharacterized protein LOC102577612 isoform X2
Refseq	XP_006349234.1	1e-170	PREDICTED: uncharacterized protein LOC102577612 isoform X2
Refseq	XP_006349235.1	1e-170	PREDICTED: uncharacterized protein LOC102577612 isoform X2
Swissprot	Q8L4B2	9e-85	NFYC9_ARATH; Nuclear transcription factor Y subunit C-9
TrEMBL	M1AHZ1	1e-169	M1AHZ1_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400023211	1e-144	(Solanum tuberosum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G08970.4	2e-81	nuclear factor Y, subunit C9

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400015809
Entrez Gene	102577612

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] Hwang YH, et al. Functional conservation of rice OsNF-YB/YC and Arabidopsis AtNF-YB/YC proteins in the regulation of flowering time. Plant Cell Rep., 2016. 35(4): p. 857-65 [PMID:26754793] Liu X, et al. The NF-YC-RGL2 module integrates GA and ABA signalling to regulate seed germination in Arabidopsis. Nat Commun, 2016. 7: p. 12768 [PMID:27624486] Myers ZA, et al. NUCLEAR FACTOR Y, Subunit C (NF-YC) Transcription Factors Are Positive Regulators of Photomorphogenesis in Arabidopsis thaliana. PLoS Genet., 2016. 12(9): p. e1006333 [PMID:27685091] 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] Gnesutta N, et al. CONSTANS Imparts DNA Sequence Specificity to the Histone Fold NF-YB/NF-YC Dimer. Plant Cell, 2017. 29(6): p. 1516-1532 [PMID:28526714] Bi C,Ma Y,Wang XF,Zhang DP Overexpression of the transcription factor NF-YC9 confers abscisic acid hypersensitivity in Arabidopsis. Plant Mol. Biol., 2017. 95(4-5): p. 425-439 [PMID:28924726] Liu X, et al. Temporal-Specific Interaction of NF-YC and CURLY LEAF during the Floral Transition Regulates Flowering. Plant Physiol., 2018. 177(1): p. 105-114 [PMID:29599268]