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- PDB-10aw: Cryo-EM structure of 50 kDa outer membrane protein (omp50) in C. ... -

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Basic information

Entry
Database: PDB / ID: 10aw
TitleCryo-EM structure of 50 kDa outer membrane protein (omp50) in C. jejuni
Components50 kDa outer membrane protein
KeywordsMEMBRANE PROTEIN / omp50 / 50 kDa outer membrane protein / C. jejuni
Function / homologyProtein of unknown function DUF3373 / Protein of unknown function (DUF3373) / 50 kDa outer membrane protein
Function and homology information
Biological speciesCampylobacter jejuni (Campylobacter)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.82 Å
AuthorsZhang, Z. / Gregor, W.
Funding support United States, 1items
OrganizationGrant numberCountry
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) United States
CitationJournal: To Be Published
Title: Cryo-EM structure of 50 kDa outer membrane protein (omp50) in C. jejuni
Authors: Zhang, Z. / Gregor, W.
History
DepositionJan 9, 2026Deposition site: RCSB / Processing site: RCSB
Revision 1.0Aug 12, 2026Provider: repository / Type: Initial release
Revision 1.0Aug 12, 2026Data content type: EM metadata / Data content type: EM metadata / Provider: repository / Type: Initial release

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Assembly

Deposited unit
A: 50 kDa outer membrane protein
B: 50 kDa outer membrane protein
C: 50 kDa outer membrane protein


Theoretical massNumber of molelcules
Total (without water)160,1903
Polymers160,1903
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author&software
  • Evidence: electron microscopy, not applicable
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1

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Components

#1: Protein 50 kDa outer membrane protein


Mass: 53396.598 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Source: (natural) Campylobacter jejuni (Campylobacter) / References: UniProt: Q0P986
Has protein modificationN

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction

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Sample preparation

ComponentName: 50 kDa outer membrane protein / Type: COMPLEX / Entity ID: all / Source: NATURAL
Source (natural)Organism: Campylobacter jejuni (Campylobacter)
Buffer solutionpH: 7.5
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
VitrificationCryogen name: ETHANE

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyModel: TFS KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELD / Nominal defocus max: 1500 nm / Nominal defocus min: 700 nm
Image recordingElectron dose: 50 e/Å2 / Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k)

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Processing

EM software
IDNameVersionCategory
1cryoSPARCparticle selection
2PHENIX1.20.1_4487model refinement
13cryoSPARC3D reconstruction
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
3D reconstructionResolution: 2.82 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 21652 / Symmetry type: POINT
RefinementHighest resolution: 2.82 Å
Stereochemistry target values: REAL-SPACE (WEIGHTED MAP SUM AT ATOM CENTERS)
Refine LS restraints
Refine-IDTypeDev idealNumber
ELECTRON MICROSCOPYf_bond_d0.00210731
ELECTRON MICROSCOPYf_angle_d0.36814541
ELECTRON MICROSCOPYf_dihedral_angle_d8.993894
ELECTRON MICROSCOPYf_chiral_restr0.0391497
ELECTRON MICROSCOPYf_plane_restr0.0031920

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