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

XP_009148153.1

Organism

Brassica rapa

Taxonomic ID

3711

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: 230aa MW: 25587.7 Da PI: 4.8893

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009148153.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	177.2	1.6e-55	58	161	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdfl 92 ql++fwe+q iek+tdfknh+lPlarikki+kadedv+misaeaPv++++ace+f+leltlrsw+h+eenkrrtl+k+diaaavtrtdifdfl XP_009148153.1 58 QLQVFWENQfkeIEKTTDFKNHSLPLARIKKIMKADEDVRMISAEAPVVFARACEMFLLELTLRSWNHTEENKRRTLQKNDIAAAVTRTDIFDFL 152 89****99999****************************************************************************** PP NF-YC 93 vdivprdel 101 vdivpr++l XP_009148153.1 153 VDIVPREDL 161 ****986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	5.9E-32	45	152	IPR009072	Histone-fold
Gene3D	G3DSA:1.10.20.10	2.0E-37	72	144	IPR009072	Histone-fold
Pfam	PF00808	2.7E-21	80	143	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 230 aa Download sequence Send to blast
MDQQEHGQSG AMNYATNPYQ TNPMTTTAPG SAGPAAPQGQ LAFHQIHQQQ QQQQLTQQLQ 60 VFWENQFKEI EKTTDFKNHS LPLARIKKIM KADEDVRMIS AEAPVVFARA CEMFLLELTL 120 RSWNHTEENK RRTLQKNDIA AAVTRTDIFD FLVDIVPRED LRDEVLGRGT VPEAAAAAGY 180 PYGYLPPGTG PIGNPGMVMG NPGGAYPPNP YMGQPMWPQQ QGPDQPDPEN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	6e-64	66	158	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	130	136	RRTLQKN

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.1351	1e-157	bud\| flower\| leaf\| root

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	XP_009148153.1

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	0.0	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_009148153.1	1e-172	PREDICTED: nuclear transcription factor Y subunit C-9-like
Refseq	XP_009148154.1	1e-172	PREDICTED: nuclear transcription factor Y subunit C-9-like
Swissprot	Q8L4B2	1e-131	NFYC9_ARATH; Nuclear transcription factor Y subunit C-9
TrEMBL	A0A3P5YWV5	1e-157	A0A3P5YWV5_BRACM; Uncharacterized protein (Fragment)
STRING	Bra018589.1-P	1e-157	(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	5e-89	nuclear factor Y, subunit C9

Publications ? help Back to Top
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]