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

GSBRNA2T00051514001

Common Name

GSBRNA2T00051514001

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: 297aa MW: 33273.1 Da PI: 9.919

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00051514001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	178.1	8.5e-56	125	228	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtd 87 ql++fw++q iek+tdfknh+lPlarikki+kadedv+misaeaPv++++ace+fileltlrsw+h+eenkrrtl+k+diaaavtrtd GSBRNA2T00051514001 125 QLQVFWQNQfkeIEKTTDFKNHSLPLARIKKIMKADEDVRMISAEAPVVFARACEMFILELTLRSWNHTEENKRRTLQKNDIAAAVTRTD 214 89****99999************************************************************************* PP NF-YC 88 ifdflvdivprdel 101 ifdflvdivpr++l GSBRNA2T00051514001 215 IFDFLVDIVPREDL 228 *********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	4.69E-32	116	219	IPR009072	Histone-fold
Gene3D	G3DSA:1.10.20.10	1.1E-37	139	211	IPR009072	Histone-fold
Pfam	PF00808	9.1E-22	147	210	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain

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: 297 aa Download sequence Send to blast
MISLILVRKK RKAKAINKIT IDLPTLPHPR GSTSVFLGHQ LQILLAKPTP SESTHIIRRY 60 RKASTLLLWL EDTLLSLFSK RMDQQEHGQS RAMNYGTNPY QTGTVGPTAP SGQMAFHQQQ 120 QLTQQLQVFW QNQFKEIEKT TDFKNHSLPL ARIKKIMKAD EDVRMISAEA PVVFARACEM 180 FILELTLRSW NHTEENKRRT LQKNDIAAAV TRTDIFDFLV DIVPREDLRD EVLGSIPRGT 240 VPEASAAGYP YGYLPSGTAP VGNSGMVMGN PGSAYPPNPY MGQPIWQHQG PGQPDQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	5e-62	133	225	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	197	203	RRTLQKN

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.5308	0.0	microspore-derived embryo\| seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Ubiquitous. Present in etiolated seedlings. {ECO:0000269\|PubMed:11867211, 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). Interacts with REF6 to directly regulate SOC1 transcription in response to flowering signals from photoperiod and gibberellic acid pathways (PubMed:25105952). {ECO:0000250, ECO:0000269\|PubMed:25105952}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00051514001

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	KC797145	1e-162	KC797145.1 Brassica napus transcription factor subunit NF-YC9B (NF-YC9B) gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013640307.1	1e-162	nuclear transcription factor Y subunit C-9-like
Refseq	XP_013640308.1	1e-162	nuclear transcription factor Y subunit C-9-like
Refseq	XP_013640309.1	1e-162	nuclear transcription factor Y subunit C-9-like
Refseq	XP_013640311.1	1e-162	nuclear transcription factor Y subunit C-9-like
Refseq	XP_013640312.1	1e-162	nuclear transcription factor Y subunit C-9-like
Refseq	XP_022563601.1	1e-162	nuclear transcription factor Y subunit C-9-like
Swissprot	Q8L4B2	1e-126	NFYC9_ARATH; Nuclear transcription factor Y subunit C-9
TrEMBL	A0A078H3S3	0.0	A0A078H3S3_BRANA; BnaCnng06510D protein
STRING	Bra030749.1-P	1e-146	(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
AT1G08970.4	1e-117	nuclear factor Y, subunit C9

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] Gnesutta N, et al. CONSTANS Imparts DNA Sequence Specificity to the Histone Fold NF-YB/NF-YC Dimer. Plant Cell, 2017. 29(6): p. 1516-1532 [PMID:28526714] Bi C,Ma Y,Wang XF,Zhang DP Overexpression of the transcription factor NF-YC9 confers abscisic acid hypersensitivity in Arabidopsis. Plant Mol. Biol., 2017. 95(4-5): p. 425-439 [PMID:28924726] Liu X, et al. Temporal-Specific Interaction of NF-YC and CURLY LEAF during the Floral Transition Regulates Flowering. Plant Physiol., 2018. 177(1): p. 105-114 [PMID:29599268]