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.086680.1

Common Name

Csa_6G426970, LOC101204606

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: 264aa MW: 29202.1 Da PI: 4.4005

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.086680.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	39.8	1e-12	1	69	30	98
NF-YC 30 lkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflvdivpr 98 ++adedv +i+ +P l+ska elf+ +l r++ + + rtl+ ++++++ ++fdfl d+v + Cucsa.086680.1 1 MQADEDVGKIAMAVPLLVSKALELFLQNLCNRTYEITLKRGARTLNSLHLKQCIQTFNVFDFLRDVVGK 69 899**************************************************************9975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF00808	1.0E-11	1	54	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	7.1E-18	1	68	IPR009072	Histone-fold
SuperFamily	SSF47113	2.1E-18	1	70	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: 264 aa Download sequence Send to blast
MQADEDVGKI AMAVPLLVSK ALELFLQNLC NRTYEITLKR GARTLNSLHL KQCIQTFNVF 60 DFLRDVVGKV PDLGGSDAVE DRHISKRRKV ADEDGGNDSD EESKRSKMTE AGHCISGRGR 120 GRGRGRGRGR SSRHLEKDTA IHYDNFEDDL EIPDHLDDDL HKTEPDNGVA EARVENDNTL 180 VDKALEPSVR NFDLNVNLDE DGDSTSIPVA ASTGSPVKPP TDSKHDEYPG WSVAEMEKMA 240 IDPIQLANIN ETIDDEEDYD EEG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1jfi_A	1e-14	1	55	21	75	Transcription Regulator NC2 alpha chain
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	119	128	RGRGRGRGRG
2	119	129	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	LN681842	0.0	LN681842.1 Cucumis melo genomic scaffold, anchoredscaffold00022.
GenBank	LN713259	0.0	LN713259.1 Cucumis melo genomic chromosome, chr_5.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004140269.1	0.0	PREDICTED: dr1-associated corepressor-like
TrEMBL	A0A0A0KI73	0.0	A0A0A0KI73_CUCSA; Uncharacterized protein
STRING	XP_004140269.1	0.0	(Cucumis sativus)
STRING	XP_004156107.1	0.0	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1728	34	91

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G19490.1	3e-44	NF-YC family protein

Link Out ? help Back to Top
Phytozome	Cucsa.086680.1
Entrez Gene	101204606

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]