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.076390.2

Common Name

Csa_5G583350, LOC101209714

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: 274aa MW: 30450.6 Da PI: 4.7382

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.076390.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	55.7	1.1e-17	1	76	23	98
NF-YC 23 larikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflvdivpr 98 +arikki++adedv +i+ +Pvl+ska elf+ +l r++ + + +t++ ++ +v++ +fdfl div r Cucsa.076390.2 1 MARIKKIMQADEDVGKIALAVPVLVSKALELFLQDLCDRTYEITLQRGAKTMNSLHLKHCVQSYSVFDFLRDIVGR 76 69***********************************************************************976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	6.5E-24	1	75	IPR009072	Histone-fold
Pfam	PF00808	1.5E-17	1	61	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
SuperFamily	SSF47113	1.71E-19	8	77	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: 274 aa Download sequence Send to blast
MARIKKIMQA DEDVGKIALA VPVLVSKALE LFLQDLCDRT YEITLQRGAK TMNSLHLKHC 60 VQSYSVFDFL RDIVGRVPDY GHGHSDGAVD DRKRRKPLGD EGNDFDELKK SKMHDMSHVS 120 TGRGRGRGRG RGRGRPARSA ERDNYQPNPD VDPCTSIENR NKNPNPDVHM EHHVEPSDTP 180 KEVSEANQAI QNFDLNADVS TNEDSKTVPA AAVSDAPIEP AAPTTTTESE TKAADEFPAW 240 PLSDVDKMAI DPLQYTHLSS RVDEEEEDYD EEE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1jfi_A	7e-19	2	62	15	75	Transcription Regulator NC2 alpha chain
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	124	133	RGRGRGRGRG
2	124	134	RGRGRGRGRGR

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	LN681896	0.0	LN681896.1 Cucumis melo genomic scaffold, anchoredscaffold00016.
GenBank	LN713264	0.0	LN713264.1 Cucumis melo genomic chromosome, chr_10.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004147086.1	0.0	PREDICTED: dr1-associated corepressor
TrEMBL	A0A0A0KPQ2	0.0	A0A0A0KPQ2_CUCSA; Uncharacterized protein
STRING	XP_004147086.1	0.0	(Cucumis sativus)
STRING	XP_004165516.1	0.0	(Cucumis sativus)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G12480.1	8e-62	nuclear factor Y, subunit C11

Link Out ? help Back to Top
Phytozome	Cucsa.076390.2
Entrez Gene	101209714

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]