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

676790660

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

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

Family

NF-YC

Protein Properties

Length: 219aa MW: 24461.4 Da PI: 5.0222

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676790660	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	176.5	2.6e-55	49	152	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflvdivp 97 ql+sfwe+q iek+ dfknh+lPlarikki+kadedv+misaeaPv++++ace+fileltlrsw+h+eenkrrtl+k+diaaavtrtdifdflvdivp 676790660 49 QLQSFWETQfkeIEKTIDFKNHSLPLARIKKIMKADEDVRMISAEAPVVFARACEMFILELTLRSWNHTEENKRRTLQKNDIAAAVTRTDIFDFLVDIVP 148 89***999999************************************************************************************* PP NF-YC 98 rdel 101 r++l 676790660 149 RENL 152 *976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	3.55E-33	21	143	IPR009072	Histone-fold
Pfam	PF00808	5.3E-22	71	134	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	6.4E-38	72	149	IPR009072	Histone-fold

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

Sequence ? help Back to Top
Protein Sequence Length: 219 aa Download sequence Send to blast
MDQQGQSSAM NYGSNPYQTN PMTTTAPTGP DHAAYHQIHQ QQQQQLTQQL QSFWETQFKE 60 IEKTIDFKNH SLPLARIKKI MKADEDVRMI SAEAPVVFAR ACEMFILELT LRSWNHTEEN 120 KRRTLQKNDI AAAVTRTDIF DFLVDIVPRE NLRDEVLGGV GGDVAATAAG YPYGYLPPGS 180 APIGNPGMVM GNPGAYPPNP YMGQPMWQQH GADQQDPDN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	5e-64	56	149	2	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	121	127	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. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	676790660

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	AC064840	0.0	AC064840.2 Arabidopsis thaliana chromosome I BAC T24C10 genomic sequence, complete sequence.
GenBank	AC069144	0.0	AC069144.9 Arabidopsis thaliana chromosome 1 BAC F14C21 genomic sequence, complete sequence.
GenBank	AY062775	0.0	AY062775.1 Arabidopsis thaliana Unknown protein (At1g54830; T22H22.22) mRNA, complete cds.
GenBank	AY081654	0.0	AY081654.1 Arabidopsis thaliana unknown protein (At1g54830) mRNA, complete cds.
GenBank	AY087517	0.0	AY087517.1 Arabidopsis thaliana clone 36272 mRNA, complete sequence.
GenBank	CP002684	0.0	CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
GenBank	T22H22	0.0	AC005388.1 Sequence of BAC T22H22 from Arabidopsis thaliana chromosome 1, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019094980.1	1e-137	PREDICTED: nuclear transcription factor Y subunit C-3
Swissprot	Q9ZVL3	1e-137	NFYC3_ARATH; Nuclear transcription factor Y subunit C-3
TrEMBL	A0A178WGU5	1e-135	A0A178WGU5_ARATH; NF-YC3
STRING	XP_010480199.1	1e-137	(Camelina sativa)

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
AT1G54830.3	1e-127	nuclear factor Y, subunit C3

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] Gnesutta N,Saad D,Chaves-Sanjuan A,Mantovani R,Nardini M Crystal Structure of the Arabidopsis thaliana L1L/NF-YC3 Histone-fold Dimer Reveals Specificities of the LEC1 Family of NF-Y Subunits in Plants. Mol Plant, 2017. 10(4): p. 645-648 [PMID:27871811] 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]