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- EMDB-76793: Rabbit Aldolase, Laser Phase Plate TEM, Laser-OFF dataset 2 (A2) -

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Basic information

Entry
Database: EMDB / ID: EMD-76793
TitleRabbit Aldolase, Laser Phase Plate TEM, Laser-OFF dataset 2 (A2)
Map data
Sample
  • Organelle or cellular component: Rabbit Aldolase
Keywordscommon standard / OXYGEN TRANSPORT
Biological speciesOryctolagus cuniculus (rabbit)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.46 Å
AuthorsPetrov PN / Zhang JT / Remis JP / Axelrod JJ / Cheng H / Cooper E / Hicklin IK / Sandhaus S / Schnurr C / Glaeser RM / Mueller HM
Funding support United States, 1 items
OrganizationGrant numberCountry
Chan Zuckerberg Initiative2025-367757 United States
CitationJournal: Science / Year: 2026
Title: Laser phase plate improves structure determination of small proteins by cryo-EM.
Authors: Petar N Petrov / Jessie T Zhang / Jonathan Remis / Jeremy J Axelrod / Hang Cheng / Eric S Cooper / Ian K Hicklin / Shahar Sandhaus / Cooper Schnurr / Robert M Glaeser / Holger Müller /
Abstract: Phase plates can in principle overcome the poor image contrast in electron cryo-microscopy (cryo-EM) and the resulting limits on the structural reconstruction of small proteins. However, previous ...Phase plates can in principle overcome the poor image contrast in electron cryo-microscopy (cryo-EM) and the resulting limits on the structural reconstruction of small proteins. However, previous designs have been unstable and compromised the high-resolution signal. They have thus been unable to surpass results achieved by standard cryo-EM. Here, we show that the laser phase plate (LPP), installed in a custom, modern Titan Krios microscope, enhances the resolution in single-particle reconstruction of small proteins by improving specimen-motion correction, recovery of information from the early frames, as well as particle visualization, 3D classification, and alignment. These advances use standard defocus ranges and reconstruction procedures, but open the door to LPP-tailored protocols offering further improvements by leveraging the LPP demonstrated here.
History
DepositionApr 20, 2026-
Header (metadata) releaseJul 1, 2026-
Map releaseJul 1, 2026-
UpdateJul 1, 2026-
Current statusJul 1, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_76793.png

Downloads & links

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Map

FileDownload / File: emd_76793.map.gz / Format: CCP4 / Size: 30.5 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

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AxesZ (Sec.)Y (Row.)X (Col.)
0.94 Å/pix.
x 200 pix.
= 188. Å		0.94 Å/pix.
x 200 pix.
= 188. Å		0.94 Å/pix.
x 200 pix.
= 188. Å

Surface

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Images are generated by Spider.

Voxel sizeX=Y=Z: 0.94 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.01
Minimum - Maximum-0.054319076 - 0.09871547
Average (Standard dev.)0.00013316849 (±0.0034839667)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions200200200
Spacing200200200
CellA=B=C: 188.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_76793_half_map_1.map
Projections & Slices
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Half map: #2

Fileemd_76793_half_map_2.map
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Sample components

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Entire : Rabbit Aldolase

EntireName: Rabbit Aldolase
Components
  • Organelle or cellular component: Rabbit Aldolase

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Supramolecule #1: Rabbit Aldolase

SupramoleculeName: Rabbit Aldolase / type: organelle_or_cellular_component / ID: 1 / Parent: 0 / Details: Purchased from Sigma
Source (natural)Organism: Oryctolagus cuniculus (rabbit) / Tissue: muscle

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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

Concentration1.6 mg/mL
BufferpH: 7.5
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Specialist opticsPhase plate: OTHER / Spherical aberration corrector: CETCOR / Energy filter - Name: TFS Selectris X / Energy filter - Slit width: 5 eV
Image recordingFilm or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.1 µm / Nominal defocus min: 0.25 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionApplied symmetry - Point group: D2 (2x2 fold dihedral) / Resolution.type: BY AUTHOR / Resolution: 2.46 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 5.0) / Number images used: 12831
Initial angle assignmentType: RANDOM ASSIGNMENT
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

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