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

GSBRNA2T00088944001

Common Name

GSBRNA2T00088944001

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: 265aa MW: 29559.5 Da PI: 4.8729

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00088944001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	175.5	5.2e-55	41	144	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtd 87 ql++fw++q ie+++dfknh+lPlarikki+kadedv+misaeaP+l++kace+filelt+rswlhaeenkrrtl+ +diaaa+trtd GSBRNA2T00088944001 41 QLQMFWNYQrteIEQVNDFKNHQLPLARIKKIMKADEDVRMISAEAPILFAKACEIFILELTIRSWLHAEENKRRTLQENDIAAAITRTD 130 89***999999************************************************************************* PP NF-YC 88 ifdflvdivprdel 101 ifdflvdivpr+e GSBRNA2T00088944001 131 IFDFLVDIVPREEE 144 *********975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	7.04E-33	36	135	IPR009072	Histone-fold
Pfam	PF00808	4.8E-20	63	126	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	1.9E-36	64	141	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: 265 aa Download sequence Send to blast
MDNNNQQPPP PTSAAVIPPP GSTPVSPSRG ASSYHELLQQ QLQMFWNYQR TEIEQVNDFK 60 NHQLPLARIK KIMKADEDVR MISAEAPILF AKACEIFILE LTIRSWLHAE ENKRRTLQEN 120 DIAAAITRTD IFDFLVDIVP REEEEEEEAA APAPYYYPPM GQPAGTMIGR PVVDHGGVYA 180 QPQSQVWQSV WQSSGGGEDV SYGSGGSSGG HGNIDNQGLL MLKSLHCLAL NYFERAWKDF 240 RCCLVLKDQK LRLIFNPALD FACV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	4e-52	49	141	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Ubiquitous. Present in etiolated seedlings. {ECO:0000269\|PubMed:11250072, ECO:0000269\|PubMed:17322342}.

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). Involved in the abscisic acid (ABA) signaling pathway. {ECO:0000250, ECO:0000269\|PubMed:17322342}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00088944001

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	EU941211	0.0	EU941211.1 Zea mays clone 1394635 mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013703129.1	1e-162	nuclear transcription factor Y subunit C-4-like
Swissprot	Q9FMV5	1e-96	NFYC4_ARATH; Nuclear transcription factor Y subunit C-4
TrEMBL	A0A078IDU2	0.0	A0A078IDU2_BRANA; BnaCnng15880D protein
STRING	Bo9g017690.1	1e-128	(Brassica oleracea)

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	2e-72	nuclear factor Y, subunit C4

Publications ? help Back to Top
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] 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] Qi M, et al. QQS orphan gene and its interactor NF-YC4 reduce susceptibility to pathogens and pests. Plant Biotechnol. J., 2019. 17(1): p. 252-263 [PMID:29878511]