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

GSBRNA2T00121648001

Common Name

GSBRNA2T00121648001, NF-YC1

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

NF-YC

Protein Properties

Length: 222aa MW: 24301.5 Da PI: 4.848

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00121648001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	179.1	4.2e-56	37	141	1	102
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtd 87 ql++fw++q ie+++dfknh+lPlarikki+kadedv+misaeaP+l++kacelfilelt+rswlhaeenkrrtl+k+diaaa+trtd GSBRNA2T00121648001 37 QLQMFWSYQrqeIEQVNDFKNHQLPLARIKKIMKADEDVRMISAEAPILFAKACELFILELTIRSWLHAEENKRRTLQKNDIAAAITRTD 126 89***998899************************************************************************* PP NF-YC 88 ifdflvdivprdelk 102 ifdflvdivpr+e+k GSBRNA2T00121648001 127 IFDFLVDIVPREEIK 141 *********9975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	6.68E-34	31	131	IPR009072	Histone-fold
Pfam	PF00808	1.4E-20	59	122	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	6.1E-37	60	137	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: 222 aa Download sequence Send to blast
MDNNNQQSSP SAAGIPPPVS AVGGASYHHL LQQQQQQLQM FWSYQRQEIE QVNDFKNHQL 60 PLARIKKIMK ADEDVRMISA EAPILFAKAC ELFILELTIR SWLHAEENKR RTLQKNDIAA 120 AITRTDIFDF LVDIVPREEI KEEPGIGGMM PPAVSGVPYY YPPMGGPGGM MIGRPAMDPS 180 GVYVQPPSQA WQSVWQTSAT GDDVSYGSGG SSGQGNLDGQ V*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	4e-55	45	137	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	109	115	RRTLQKN

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.9157	0.0	seed\| stem

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	GSBRNA2T00121648001

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	KC797141	0.0	KC797141.1 Brassica napus transcription factor subunit NF-YC1 (NF-YC1) gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009149806.1	1e-162	PREDICTED: nuclear transcription factor Y subunit C-1
Refseq	XP_013727066.1	1e-162	nuclear transcription factor Y subunit C-1
Swissprot	Q9SMP0	1e-113	NFYC1_ARATH; Nuclear transcription factor Y subunit C-1
TrEMBL	W8E7X7	1e-162	W8E7X7_BRANA; Transcription factor subunit NF-YC1
STRING	Bra018046.1-P	1e-162	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM478	28	160

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63470.2	9e-99	nuclear factor Y, subunit C4

Publications ? help Back to Top
Liang M, et al. Identification and characterization of NF-Y transcription factor families in Canola (Brassica napus L.). Planta, 2014. 239(1): p. 107-26 [PMID:24097262] Shi H,Chan ZL AtHAP5A modulates freezing stress resistance in Arabidopsis independent of the CBF pathway. Plant Signal Behav, 2015. [PMID:24831307] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]