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

29844.m003332

Common Name

LOC8271587, RCOM_0913480

Organism

Ricinus communis

Taxonomic ID

3988

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus

Family

NF-YC

Protein Properties

Length: 246aa MW: 27516 Da PI: 5.2575

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
29844.m003332	genome	JCVI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	177.8	1e-55	71	173	2	101
NF-YC 2 lksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflvd 94 l+sfw++q ie+++dfknh+lPlarikki+kadedv+misaeaPv++s+ace+fileltlrsw+h+eenkrrtl+k+diaaa+trtdifdflvd 29844.m003332 71 LQSFWANQyqdIEQTSDFKNHSLPLARIKKIMKADEDVRMISAEAPVIFSRACEMFILELTLRSWNHTEENKRRTLQKNDIAAAITRTDIFDFLVD 166 89***9999********************************************************************************* PP NF-YC 95 ivprdel 101 ivpr++l 29844.m003332 167 IVPREDL 173 **987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	1.48E-32	67	164	IPR009072	Histone-fold
Gene3D	G3DSA:1.10.20.10	6.3E-38	83	156	IPR009072	Histone-fold
Pfam	PF00808	2.1E-21	92	155	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain

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: 246 aa Download sequence Send to blast
MDQHGHGQPP AASVVGTTAP VPYGMSSYQP NQMMGPATTG SLQSATSQSQ LAQHQFAYQH 60 IPQQQQLQQE LQSFWANQYQ DIEQTSDFKN HSLPLARIKK IMKADEDVRM ISAEAPVIFS 120 RACEMFILEL TLRSWNHTEE NKRRTLQKND IAAAITRTDI FDFLVDIVPR EDLKDEVLAS 180 VPRGSLPVGG TAEAIPYYYM QPQFPPQVVA SGMTAGKPVA DQILYDQQSR PYVAQPMWAQ 240 QPPPDS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	5e-61	78	170	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	142	148	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	29844.m003332

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	AC215849	1e-155	AC215849.1 Populus trichocarpa clone POP023-L07, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002517180.1	0.0	nuclear transcription factor Y subunit C-9
Refseq	XP_015573477.1	0.0	nuclear transcription factor Y subunit C-9
Refseq	XP_015573478.1	0.0	nuclear transcription factor Y subunit C-9
Swissprot	Q8L4B2	5e-80	NFYC9_ARATH; Nuclear transcription factor Y subunit C-9
TrEMBL	B9RTW1	0.0	B9RTW1_RICCO; Ccaat-binding transcription factor, putative
STRING	XP_002517180.1	0.0	(Ricinus communis)

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-76	nuclear factor Y, subunit C9

Link Out ? help Back to Top
Phytozome	29844.m003332
Entrez Gene	8271587

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]