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

Cucsa.182170.1

Common Name

Csa_1G570150, LOC101209664

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

NF-YC

Protein Properties

Length: 260aa MW: 28699.5 Da PI: 6.3411

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.182170.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	177.6	1.2e-55	81	184	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdfl 92 ql++fw +q iek+tdfknh+lPlarikki+kadedv+misaeaPvl+++ace+fileltlrsw+h+eenkrrtl+k+diaaa+trtdifdfl Cucsa.182170.1 81 QLQTFWVNQyqeIEKVTDFKNHSLPLARIKKIMKADEDVRMISAEAPVLFARACEMFILELTLRSWNHTEENKRRTLQKNDIAAAITRTDIFDFL 175 89***999999****************************************************************************** PP NF-YC 93 vdivprdel 101 vdivpr++l Cucsa.182170.1 176 VDIVPREDL 184 ****987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	6.2E-33	69	175	IPR009072	Histone-fold
Pfam	PF00808	7.1E-22	103	166	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	8.2E-38	104	181	IPR009072	Histone-fold

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0005829	Cellular Component	cytosol
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 260 aa Download sequence Send to blast
MDQQGHGQPP SMGAVGSGGQ IAYGSNLYHP NQMSVGPTSG SVVTSVGGIQ STSQPGGAQL 60 AQHQLAYQHI HQQQQQQLQQ QLQTFWVNQY QEIEKVTDFK NHSLPLARIK KIMKADEDVR 120 MISAEAPVLF ARACEMFILE LTLRSWNHTE ENKRRTLQKN DIAAAITRTD IFDFLVDIVP 180 REDLKDEVLT SIPRGSMTVG GPGDTLPYYM PSQHAPQVGA PGMIMGKPVM DPAMYAPQSH 240 PYMAPQMWQH AQDQAPPDQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	3e-62	87	181	1	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	153	159	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}.

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	LN681806	0.0	LN681806.1 Cucumis melo genomic scaffold, anchoredscaffold00025.
GenBank	LN713256	0.0	LN713256.1 Cucumis melo genomic chromosome, chr_2.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011659897.1	0.0	PREDICTED: nuclear transcription factor Y subunit C-9
Refseq	XP_011659898.1	0.0	PREDICTED: nuclear transcription factor Y subunit C-9
Swissprot	Q8L4B2	3e-85	NFYC9_ARATH; Nuclear transcription factor Y subunit C-9
TrEMBL	A0A0A0LW22	0.0	A0A0A0LW22_CUCSA; Uncharacterized protein
STRING	XP_004157253.1	0.0	(Cucumis sativus)

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	6e-81	nuclear factor Y, subunit C9

Link Out ? help Back to Top
Phytozome	Cucsa.182170.1
Entrez Gene	101209664

Publications ? help Back to Top
Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402] 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]