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

Tp57577_TGAC_v2_mRNA28601

Organism

Trifolium pratense

Taxonomic ID

57577

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium

Family

NF-YC

Protein Properties

Length: 86aa MW: 9436.07 Da PI: 10.479

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp57577_TGAC_v2_mRNA28601	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	86.4	3e-27	22	86	19	82
NF-YC 19 helPlarikkilka.dedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaa 82 h+lPlarikki+k edvkmis aP+++skace+fi elt rsw+ a + krrtl+k dia+a Tp57577_TGAC_v2_mRNA28601 22 HSLPLARIKKIMKNsSEDVKMISGVAPIVFSKACEIFIEELTRRSWIMAIDGKRRTLNKEDIASA 86 99********96269*******************************************976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	3.89E-24	15	86	IPR009072	Histone-fold
Gene3D	G3DSA:1.10.20.10	2.4E-29	19	86	IPR009072	Histone-fold
Pfam	PF00808	3.2E-19	23	86	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain

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: 86 aa Download sequence Send to blast
MRQAGAYSNL LCGGISGRTG PHSLPLARIK KIMKNSSEDV KMISGVAPIV FSKACEIFIE 60 ELTRRSWIMA IDGKRRTLNK EDIASA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	9e-24	22	86	16	79	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the regulation of flowering time under long day (LD) conditions. Functions as repressor of flowering, independently of HD1 and GHD7. Controls flowering time by negatively regulating the expression of EHD1 and HD3A (PubMed:26542958). Component of the NF-Y/HAP transcription factor complex (By similarity). {ECO:0000250, ECO:0000269\|PubMed:26542958}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp57577_TGAC_v2_mRNA28601

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Circadian-regulation under long day (LD) conditions. Expression increases in the middle of daytime, peaks around the end of the light period and gradually decreases during the dark period and beginning of daylight. {ECO:0000269\|PubMed:26542958}.

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	AC136138	1e-103	AC136138.30 Medicago truncatula clone mth2-8f9, complete sequence.
GenBank	JQ918298	1e-103	JQ918298.1 Medicago truncatula nuclear transcription factor Y subunit C6 (NF-YC6) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003541864.1	4e-52	nuclear transcription factor Y subunit C-1
Refseq	XP_028190533.1	4e-52	nuclear transcription factor Y subunit C-1-like
Swissprot	Q655V5	1e-23	NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBL	A0A2K3LAA6	7e-57	A0A2K3LAA6_TRIPR; Nuclear transcription factor Y subunit C-3-like protein
STRING	GLYMA13G35980.1	1e-51	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF10559	28	41

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G56170.2	2e-25	nuclear factor Y, subunit C2

Link Out ? help Back to Top
Phytozome	Tp57577_TGAC_v2_mRNA28601

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Kim SK, et al. OsNF-YC2 and OsNF-YC4 proteins inhibit flowering under long-day conditions in rice. Planta, 2016. 243(3): p. 563-76 [PMID:26542958]