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- EMDB-60607: A local Cryo-EM structure of Bitter taste receptor TAS2R14 -

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Basic information

Entry
Database: EMDB / ID: EMD-60607
TitleA local Cryo-EM structure of Bitter taste receptor TAS2R14
Map data
Sample
  • Complex: local refinement of TAS2R14
    • Protein or peptide: Taste receptor type 2 member 14
  • Ligand: 4-methyl-N-[(2M)-2-(1H-tetrazol-5-yl)phenyl]-6-(trifluoromethyl)pyrimidin-2-amine
KeywordsGPCR / MEMBRANE PROTEIN
Function / homology
Function and homology information


bitter taste receptor activity / taste receptor activity / detection of chemical stimulus involved in sensory perception of bitter taste / Class C/3 (Metabotropic glutamate/pheromone receptors) / G protein-coupled receptor activity / Sensory perception of sweet, bitter, and umami (glutamate) taste / G alpha (i) signalling events / G protein-coupled receptor signaling pathway / membrane / plasma membrane
Similarity search - Function
Taste receptor type 2 / Taste receptor protein (TAS2R)
Similarity search - Domain/homology
Taste receptor type 2 member 14
Similarity search - Component
Biological speciesHomo sapiens (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.15 Å
AuthorsYuan Q / Duan J / Tao L / Xu EH
Funding support China, 1 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC) China
CitationJournal: Cell Res / Year: 2024
Title: Bitter taste receptor TAS2R14 activation and G protein assembly by an intracellular agonist.
Authors: Lele Tao / Dongxue Wang / Qingning Yuan / Fenghui Zhao / Yu Zhang / Tianyuan Du / Shiyi Shen / H Eric Xu / Yi Li / Dehua Yang / Jia Duan /
History
DepositionJun 21, 2024-
Header (metadata) releaseJul 24, 2024-
Map releaseJul 24, 2024-
UpdateJul 24, 2024-
Current statusJul 24, 2024Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_60607.png

Downloads & links

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Map

FileDownload / File: emd_60607.map.gz / Format: CCP4 / Size: 103 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.82 Å/pix.
x 300 pix.
= 247.2 Å		0.82 Å/pix.
x 300 pix.
= 247.2 Å		0.82 Å/pix.
x 300 pix.
= 247.2 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.824 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.32
Minimum - Maximum-1.9443127 - 2.9656997
Average (Standard dev.)-0.0033322717 (±0.04480911)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions300300300
Spacing300300300
CellA=B=C: 247.2 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_60607_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #2

Fileemd_60607_half_map_2.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : local refinement of TAS2R14

EntireName: local refinement of TAS2R14
Components
  • Complex: local refinement of TAS2R14
    • Protein or peptide: Taste receptor type 2 member 14
  • Ligand: 4-methyl-N-[(2M)-2-(1H-tetrazol-5-yl)phenyl]-6-(trifluoromethyl)pyrimidin-2-amine

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Supramolecule #1: local refinement of TAS2R14

SupramoleculeName: local refinement of TAS2R14 / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1
Source (natural)Organism: Homo sapiens (human)

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Macromolecule #1: Taste receptor type 2 member 14

MacromoleculeName: Taste receptor type 2 member 14 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 36.20007 KDa
Recombinant expressionOrganism: Spodoptera frugiperda (fall armyworm)
SequenceString: MGGVIKSIFT FVLIVEFIIG NLGNSFIALV NCIDWVKGRK ISSVDRILTA LAISRISLVW LIFGSWCVSV FFPALFATEK MFRMLTNIW TVINHFSVWL ATGLGTFYFL KIANFSNSIF LYLKWRVKKV VLVLLLVTSV FLFLNIALIN IHINASINGY R RNKTCSSD ...String:
MGGVIKSIFT FVLIVEFIIG NLGNSFIALV NCIDWVKGRK ISSVDRILTA LAISRISLVW LIFGSWCVSV FFPALFATEK MFRMLTNIW TVINHFSVWL ATGLGTFYFL KIANFSNSIF LYLKWRVKKV VLVLLLVTSV FLFLNIALIN IHINASINGY R RNKTCSSD SSNFTRFSSL IVLTSTVFIF IPFTLSLAMF LLLIFSMWKH RKKMQHTVKI SGDASTKAHR GVKSVITFFL LY AIFSLSF FISVWTSERL EENLIILSQV MGMAYPSCHS CVLILGNKKL RQASLSVLLW LRYMFKDGEP SGHKEFRESS

UniProtKB: Taste receptor type 2 member 14

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Macromolecule #2: 4-methyl-N-[(2M)-2-(1H-tetrazol-5-yl)phenyl]-6-(trifluoromethyl)p...

MacromoleculeName: 4-methyl-N-[(2M)-2-(1H-tetrazol-5-yl)phenyl]-6-(trifluoromethyl)pyrimidin-2-amine
type: ligand / ID: 2 / Number of copies: 2 / Formula: A1AEI
Molecular weightTheoretical: 321.261 Da

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.04
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K3 BIOCONTINUUM (6k x 4k) / Average electron dose: 15.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 18.0 µm / Nominal defocus min: 8.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Startup modelType of model: OTHER
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.15 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 354147
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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