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

Gorai.007G295600.1

Common Name

B456_007G295600, LOC105804840

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

NF-YC

Protein Properties

Length: 260aa MW: 28664.4 Da PI: 6.2277

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.007G295600.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	176.6	2.4e-55	76	179	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdi 88 ql++fw++q +ek++dfknh+lPlarikki+kadedv+misaeaPv++++ace+fileltlrsw+h+eenkrrtl+k+diaaa+trtdi Gorai.007G295600.1 76 QLQTFWANQyqeVEKVSDFKNHSLPLARIKKIMKADEDVRMISAEAPVIFARACEMFILELTLRSWNHTEENKRRTLQKNDIAAAITRTDI 166 89****99899************************************************************************** PP NF-YC 89 fdflvdivprdel 101 fdflvdivpr++l Gorai.007G295600.1 167 FDFLVDIVPREDL 179 ********987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	4.36E-33	67	170	IPR009072	Histone-fold
Pfam	PF00808	1.6E-21	98	161	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	1.0E-37	99	176	IPR009072	Histone-fold

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: 260 aa Download sequence Send to blast
MDHQGHGQPP AMGIIGGGAQ MPYGTNPYPN QVTGAPNSGS VGGIQPSSQP TGAQLAQHQL 60 AYQQIHQQQQ QQLQQQLQTF WANQYQEVEK VSDFKNHSLP LARIKKIMKA DEDVRMISAE 120 APVIFARACE MFILELTLRS WNHTEENKRR TLQKNDIAAA ITRTDIFDFL VDIVPREDLK 180 DEVLASIPRG TVPVGGPADA LPYYMPAQHA PQVGTPGMIM GKPVMDPALY AQQSHPYMAQ 240 PQQMWPPPGP EQQQSSSDH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	6e-62	84	176	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	148	154	RRTLQKN

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}.

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_012434105.1	0.0	PREDICTED: nuclear transcription factor Y subunit C-9-like
Refseq	XP_012434106.1	0.0	PREDICTED: nuclear transcription factor Y subunit C-9-like
Refseq	XP_012434107.1	0.0	PREDICTED: nuclear transcription factor Y subunit C-9-like
Refseq	XP_012434108.1	0.0	PREDICTED: nuclear transcription factor Y subunit C-9-like
Refseq	XP_016667403.1	0.0	PREDICTED: nuclear transcription factor Y subunit C-9-like
Refseq	XP_016667408.1	0.0	PREDICTED: nuclear transcription factor Y subunit C-9-like
Refseq	XP_016667413.1	0.0	PREDICTED: nuclear transcription factor Y subunit C-9-like
Swissprot	Q8L4B2	1e-88	NFYC9_ARATH; Nuclear transcription factor Y subunit C-9
TrEMBL	A0A0D2R1E6	0.0	A0A0D2R1E6_GOSRA; Uncharacterized protein
TrEMBL	A0A1U8HTX5	0.0	A0A1U8HTX5_GOSHI; nuclear transcription factor Y subunit C-9-like
STRING	Gorai.007G295600.1	0.0	(Gossypium raimondii)

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	2e-84	nuclear factor Y, subunit C9

Link Out ? help Back to Top
Phytozome	Gorai.007G295600.1
Entrez Gene	105804840

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] 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]