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

mrna05925.1-v1.0-hybrid

Organism

Fragaria vesca

Taxonomic ID

57918

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria

Family

NF-YC

Protein Properties

Length: 261aa MW: 28909.6 Da PI: 6.2276

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
mrna05925.1-v1.0-hybrid	genome	GDR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	177.4	1.4e-55	80	183	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaav 83 ql++fw+ q ie+a+dfknh+lPlarikki+kadedv+misaeaPv++++ace+fileltlrsw+h+eenkrrtl+k+diaaa+ mrna05925.1-v1.0-hybrid 80 QLQNFWSGQyqeIEQANDFKNHSLPLARIKKIMKADEDVRMISAEAPVIFARACEMFILELTLRSWNHTEENKRRTLQKNDIAAAI 165 89**988888********************************************************************** PP NF-YC 84 trtdifdflvdivprdel 101 trtdifdflvdivpr++l mrna05925.1-v1.0-hybrid 166 TRTDIFDFLVDIVPREDL 183 *************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	6.37E-34	54	174	IPR009072	Histone-fold
Pfam	PF00808	1.6E-21	102	165	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	1.0E-37	103	180	IPR009072	Histone-fold

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

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0009005	anatomy	root
PO:0007134	developmental stage	sporophyte vegetative stage

Sequence ? help Back to Top
Protein Sequence Length: 261 aa Download sequence Send to blast
MDQQGHGHPA TMGVPGSAGQ ASYGVNPYQP SQMMGLSPTG SVGMMHSPTQ PGGPSTPSQL 60 AQHQAYQHIH QQQQQQLQQQ LQNFWSGQYQ EIEQANDFKN HSLPLARIKK IMKADEDVRM 120 ISAEAPVIFA RACEMFILEL TLRSWNHTEE NKRRTLQKND IAAAITRTDI FDFLVDIVPR 180 EDLKDEVLAS IPRGGNVPVV GPADGLPYYY MPAQPPSQVG PPGMMVGKPV MDQNMYGQPT 240 HPYMSQPAWP QQQQPPKDSE *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	8e-62	87	180	2	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	152	158	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	mrna05925.1-v1.0-hybrid

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004296931.1	0.0	PREDICTED: nuclear transcription factor Y subunit C-9-like
Refseq	XP_004296934.1	0.0	PREDICTED: nuclear transcription factor Y subunit C-9-like
Refseq	XP_004296935.1	0.0	PREDICTED: nuclear transcription factor Y subunit C-9-like
Swissprot	Q8L4B2	7e-84	NFYC9_ARATH; Nuclear transcription factor Y subunit C-9
TrEMBL	A0A2P6QX86	1e-154	A0A2P6QX86_ROSCH; Putative transcription factor Hap3/NF-YB family
STRING	XP_004296930.1	0.0	(Fragaria vesca)

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	4e-78	nuclear factor Y, subunit C9

Link Out ? help Back to Top
Phytozome	mrna05925.1-v1.0-hybrid

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]