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- EMDB-50623: carvedilol-B1AR-arrestin2-V2Rpp complex -

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Basic information

Entry
Database: EMDB / ID: EMD-50623
Titlecarvedilol-B1AR-arrestin2-V2Rpp complex
Map data
Sample
  • Complex: carvedilol-B1AR-arrestin2-V2Rpp complex
    • Complex: B1AR
    • Complex: arrestin2
KeywordsG protein-coupled receptor / B1-adrenergic receptor / carvedilol / arrestin2 / biased agonism. / MEMBRANE PROTEIN
Biological speciesHomo sapiens (human) / Meleagris gallopavo (turkey)
Methodsingle particle reconstruction / cryo EM / Resolution: 6.5 Å
AuthorsTatli M / Abiko LA / Petrovic I / Stahlberg H / Grzesiek S
Funding support Switzerland, 4 items
OrganizationGrant numberCountry
Swiss National Science FoundationCRSK-3_195592 Switzerland
Swiss National Science Foundation31-201270 Switzerland
Swiss National Science FoundationIZLIZ3-200298 Switzerland
Swiss National Science Foundation310030_188548 Switzerland
CitationJournal: Proc.Natl.Acad.Sci.Usa / Year: 2025
Title: Arrestin recognizes GPCRs independently of the receptor state
Authors: Petrovic I
History
DepositionJun 11, 2024-
Header (metadata) releaseApr 30, 2025-
Map releaseApr 30, 2025-
UpdateApr 30, 2025-
Current statusApr 30, 2025Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_50623.png

Downloads & links

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Map

FileDownload / File: emd_50623.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.)
0.66 Å/pix.
x 300 pix.
= 197.4 Å		0.66 Å/pix.
x 300 pix.
= 197.4 Å		0.66 Å/pix.
x 300 pix.
= 197.4 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.658 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.0989
Minimum - Maximum-0.54470897 - 0.3625359
Average (Standard dev.)0.0038776037 (±0.02239264)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions300300300
Spacing300300300
CellA=B=C: 197.4 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_50623_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Additional map: #1

Fileemd_50623_additional_1.map
Projections & Slices
AxesZYX

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Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_50623_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_50623_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 : carvedilol-B1AR-arrestin2-V2Rpp complex

EntireName: carvedilol-B1AR-arrestin2-V2Rpp complex
Components
  • Complex: carvedilol-B1AR-arrestin2-V2Rpp complex
    • Complex: B1AR
    • Complex: arrestin2

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Supramolecule #1: carvedilol-B1AR-arrestin2-V2Rpp complex

SupramoleculeName: carvedilol-B1AR-arrestin2-V2Rpp complex / type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Homo sapiens (human)

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Supramolecule #2: B1AR

SupramoleculeName: B1AR / type: complex / ID: 2 / Parent: 1
Source (natural)Organism: Meleagris gallopavo (turkey)

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Supramolecule #3: arrestin2

SupramoleculeName: arrestin2 / type: complex / ID: 3 / Parent: 1
Source (natural)Organism: Homo sapiens (human)

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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: 7.5
Component:
ConcentrationFormulaName
20.0 mMC8H18N2O4SHEPES
100.0 mMNaClNaCl
0.01 %C47H88O22LMNG
10.0 mMC24H26N2O4carvedilol
GridModel: Quantifoil R1.2/1.3 / Material: COPPER / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 60 sec.
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 60.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsC2 aperture diameter: 50.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 28.0 µm / Nominal defocus min: 0.8 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Startup modelType of model: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 6.5 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 101282
Initial angle assignmentType: OTHER
Final angle assignmentType: OTHER
FSC plot (resolution estimation)

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