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

Cagra.4395s0081.1.p

Organism

Capsella grandiflora

Taxonomic ID

264402

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella

Family

NF-YC

Protein Properties

Length: 232aa MW: 25615.7 Da PI: 4.8822

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.4395s0081.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	178.8	5.1e-56	58	161	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtd 87 ql++fwe+q iek+tdfknh+lPlarikki+kadedv+misaeaPv++++ace+fileltlrsw+h+eenkrrtl+k+diaaavtrtd Cagra.4395s0081.1.p 58 QLQAFWENQfkeIEKTTDFKNHSLPLARIKKIMKADEDVRMISAEAPVVFARACEMFILELTLRSWNHTEENKRRTLQKNDIAAAVTRTD 147 89****99999************************************************************************* PP NF-YC 88 ifdflvdivprdel 101 ifdflvdivpr++l Cagra.4395s0081.1.p 148 IFDFLVDIVPREDL 161 *********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	1.04E-32	35	152	IPR009072	Histone-fold
Gene3D	G3DSA:1.10.20.10	6.9E-38	72	144	IPR009072	Histone-fold
Pfam	PF00808	5.8E-22	80	143	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: 232 aa Download sequence Send to blast
MDQQEHGQSG AMNYGTNPYQ SNPMSTTAAT VAGGAAQQGQ LAFHQIHQQQ QQQQLAQQLQ 60 AFWENQFKEI EKTTDFKNHS LPLARIKKIM KADEDVRMIS AEAPVVFARA CEMFILELTL 120 RSWNHTEENK RRTLQKNDIA AAVTRTDIFD FLVDIVPRED LRDEVLGSIP RGTVPDAAAA 180 GYPYGYLPAG TAPIGNPGMV MGNPGGTYPP NPYMGQPMWQ QQGPDQPDAE N*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	3e-64	66	158	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	130	136	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	Cagra.4395s0081.1.p

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	AK316882	0.0	AK316882.2 Arabidopsis thaliana AT1G08970 mRNA, complete cds, clone: RAFL14-04-L24.
GenBank	AY085860	0.0	AY085860.1 Arabidopsis thaliana clone 1911 mRNA, complete sequence.
GenBank	AY126997	0.0	AY126997.1 Arabidopsis thaliana At1g08970/F7G19_16 mRNA, complete cds.
GenBank	AY143827	0.0	AY143827.1 Arabidopsis thaliana At1g08970/F7G19_16 mRNA, complete cds.
GenBank	CP002684	0.0	CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
GenBank	F7G19	0.0	AC000106.1 Sequence of BAC F7G19 from Arabidopsis thaliana chromosome 1, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006304170.1	1e-173	nuclear transcription factor Y subunit C-9
Refseq	XP_023645327.1	1e-173	nuclear transcription factor Y subunit C-9
Swissprot	Q8L4B2	1e-141	NFYC9_ARATH; Nuclear transcription factor Y subunit C-9
TrEMBL	R0I491	1e-171	R0I491_9BRAS; Uncharacterized protein
STRING	Cagra.4395s0081.1.p	1e-173	(Capsella grandiflora)

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	6e-94	nuclear factor Y, subunit C9

Link Out ? help Back to Top
Phytozome	Cagra.4395s0081.1.p

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]