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

Lus10004468

Organism

Linum usitatissimum

Taxonomic ID

4006

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum

Family

NF-YC

Protein Properties

Length: 254aa MW: 28299.6 Da PI: 6.2277

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lus10004468	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	177.3	1.5e-55	65	168	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflvdi 95 ql+sfw++q iek+tdfknh+lPlarikki+kadedv+misaeaPv++++ace+fileltlr+w+h+eenkrrtl+k+diaaa+trtdifdflvdi Lus10004468 65 QLQSFWANQyqeIEKVTDFKNHSLPLARIKKIMKADEDVRMISAEAPVVFARACEMFILELTLRAWNHTEENKRRTLQKNDIAAAITRTDIFDFLVDI 162 89****99999********************************************************************************* PP NF-YC 96 vprdel 101 vpr++l Lus10004468 163 VPREDL 168 *987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	5.54E-34	30	159	IPR009072	Histone-fold
Pfam	PF00808	2.5E-22	87	150	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	2.6E-38	88	165	IPR009072	Histone-fold

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: 254 aa Download sequence Send to blast
MDHHQQGHGG QSPATGVTSG AAQMSYPYNP NQMQVPQSSG GPATSQHQIA YQQIYNQQQQ 60 QLHQQLQSFW ANQYQEIEKV TDFKNHSLPL ARIKKIMKAD EDVRMISAEA PVVFARACEM 120 FILELTLRAW NHTEENKRRT LQKNDIAAAI TRTDIFDFLV DIVPREDLKD EVLASIPRGG 180 MPGGGGSSDA MNYWPHQQQQ VGGSPGMIMG KPVMDPSSMY AQQQGMASYM GQPMWPQQQG 240 SDQQQPQSSS EHQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	1e-62	72	165	2	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	137	143	RRTLQKN

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	Lus10004468

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007030880.1	1e-106	PREDICTED: nuclear transcription factor Y subunit C-9
Refseq	XP_007030881.1	1e-106	PREDICTED: nuclear transcription factor Y subunit C-9
Refseq	XP_007030882.1	1e-106	PREDICTED: nuclear transcription factor Y subunit C-9
Refseq	XP_007030884.1	1e-106	PREDICTED: nuclear transcription factor Y subunit C-9
Refseq	XP_007030888.1	1e-106	PREDICTED: nuclear transcription factor Y subunit C-9
Refseq	XP_007030889.1	1e-106	PREDICTED: nuclear transcription factor Y subunit C-9
Refseq	XP_017977847.1	1e-106	PREDICTED: nuclear transcription factor Y subunit C-9
Swissprot	Q8L4B2	1e-82	NFYC9_ARATH; Nuclear transcription factor Y subunit C-9
TrEMBL	A0A061FA52	1e-104	A0A061FA52_THECC; Nuclear transcription factor Y subunit C-9 isoform 1
STRING	Lus10004468	0.0	(Linum usitatissimum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1257	34	108

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G08970.4	3e-78	nuclear factor Y, subunit C9

Link Out ? help Back to Top
Phytozome	Lus10004468

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]