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

Cucsa.106870.1

Common Name

Csa_4G049050, LOC101220846

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

NF-YC

Protein Properties

Length: 104aa MW: 11298.3 Da PI: 6.517

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.106870.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	102.1	4e-32	2	82	19	98
NF-YC 19 helPlarikkilk.adedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflvdivpr 98 h+lPlarikki+k + e+vkmis eaP+++skacelfi elt rsw+ a ++k+r l+k d+a+a+ td+fdfl+ + + Cucsa.106870.1 2 HSLPLARIKKIMKkSGEEVKMISGEAPIVFSKACELFIEELTKRSWMIAMQSKKRMLHKEDVASAILATDVFDFLIGLIFN 82 89********725799*******************************************************987765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	5.8E-30	2	67	IPR009072	Histone-fold
SuperFamily	SSF47113	3.59E-24	2	76	IPR009072	Histone-fold
Pfam	PF00808	2.1E-20	3	67	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 104 aa Download sequence Send to blast
PHSLPLARIK KIMKKSGEEV KMISGEAPIV FSKACELFIE ELTKRSWMIA MQSKKRMLHK 60 EDVASAILAT DVFDFLIGLI FNETATPAAT GDLGESETIS VGC*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	9e-30	2	80	16	93	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the regulation of flowering time under long day (LD) conditions. Functions as repressor of flowering, independently of HD1 and GHD7. Controls flowering time by negatively regulating the expression of EHD1 and HD3A (PubMed:26542958). Component of the NF-Y/HAP transcription factor complex (By similarity). {ECO:0000250, ECO:0000269\|PubMed:26542958}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Circadian-regulation under long day (LD) conditions. Expression increases at the end of the dark period, peaks in the beginning of the light period and gradually decreases during daytime. {ECO:0000269\|PubMed:26542958}.

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	LN681873	1e-140	LN681873.1 Cucumis melo genomic scaffold, anchoredscaffold00027.
GenBank	LN713261	1e-140	LN713261.1 Cucumis melo genomic chromosome, chr_7.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004146566.1	5e-70	PREDICTED: nuclear transcription factor Y subunit C-3-like
Swissprot	A6BLW4	2e-29	NFYC2_ORYSJ; Nuclear transcription factor Y subunit C-2
TrEMBL	A0A0A0KZN6	1e-68	A0A0A0KZN6_CUCSA; Uncharacterized protein
STRING	XP_004165238.1	2e-69	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF10559	28	41

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63470.2	2e-31	nuclear factor Y, subunit C4

Link Out ? help Back to Top
Phytozome	Cucsa.106870.1
Entrez Gene	101220846

Publications ? help Back to Top
Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402] Kim SK, et al. OsNF-YC2 and OsNF-YC4 proteins inhibit flowering under long-day conditions in rice. Planta, 2016. 243(3): p. 563-76 [PMID:26542958]