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

evm_27.model.AmTr_v1.0_scaffold00013.17

Common Name

AMTR_s00013p00054980, LOC18438026

Organism

Amborella trichopoda

Taxonomic ID

13333

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella

Family

NF-YC

Protein Properties

Length: 232aa MW: 25138.2 Da PI: 5.5893

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00013.17	genome	TAGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	168.5	8.1e-53	44	147	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhae 67 ql fw++q i +++dfk h+lPlarikki+kadedv+misaeaPvl+skacelfilelt+rswlhae evm_27.model.AmTr_v1.0_scaffold00013.17 44 QLDLFWSYQrqdILQTADFKTHTLPLARIKKIMKADEDVRMISAEAPVLFSKACELFILELTIRSWLHAE 113 7889*997777899************************************************** PP NF-YC 68 enkrrtlkksdiaaavtrtdifdflvdivprdel 101 enkrrtl+k+diaaa+trt+ifdflvdivpr+e evm_27.model.AmTr_v1.0_scaffold00013.17 114 ENKRRTLQKNDIAAAITRTEIFDFLVDIVPREEA 147 *****************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	9.35E-31	42	138	IPR009072	Histone-fold
Pfam	PF00808	1.1E-20	66	129	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	9.5E-37	67	144	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: 232 aa Download sequence Send to blast
MDPNQQNQQP SQAPARGYPH PNIPITAQSF QRQQQHLLHQ QAQQLDLFWS YQRQDILQTA 60 DFKTHTLPLA RIKKIMKADE DVRMISAEAP VLFSKACELF ILELTIRSWL HAEENKRRTL 120 QKNDIAAAIT RTEIFDFLVD IVPREEAKGD EAGALGVGAP RGLGGFGGMD PGAPGGFYYG 180 QGPSLGTPAL GFEGGPSAAS SANVWWHGEQ GYVDGGVEYG VPPPPPPPAS G*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	7e-52	52	144	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	116	122	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). Involved in the abscisic acid (ABA) signaling pathway. {ECO:0000250, ECO:0000269\|PubMed:17322342}.

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_006848258.1	1e-170	nuclear transcription factor Y subunit C-2
Swissprot	Q9FMV5	6e-65	NFYC4_ARATH; Nuclear transcription factor Y subunit C-4
TrEMBL	W1PPV8	1e-169	W1PPV8_AMBTC; Uncharacterized protein
STRING	ERN09839	1e-170	(Amborella trichopoda)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Representative plant	OGRP315	17	117

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63470.2	5e-63	nuclear factor Y, subunit C4

Link Out ? help Back to Top
Phytozome	evm_27.model.AmTr_v1.0_scaffold00013.17
Entrez Gene	18438026

Publications ? help Back to Top
Amborella Genome Project The Amborella genome and the evolution of flowering plants. Science, 2013. 342(6165): p. 1241089 [PMID:24357323] 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] Qi M, et al. QQS orphan gene and its interactor NF-YC4 reduce susceptibility to pathogens and pests. Plant Biotechnol. J., 2019. 17(1): p. 252-263 [PMID:29878511]