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- EMDB-75037: Cryo-EM structure of 50 kDa outer membrane protein (omp50) in C. ... -

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Basic information

Entry
Database: EMDB / ID: EMD-75037
TitleCryo-EM structure of 50 kDa outer membrane protein (omp50) in C. jejuni
Map data
Sample
  • Complex: 50 kDa outer membrane protein
    • Protein or peptide: 50 kDa outer membrane protein
Keywordsomp50 / 50 kDa outer membrane protein / C. jejuni / MEMBRANE PROTEIN
Function / homologyProtein of unknown function DUF3373 / Protein of unknown function (DUF3373) / 50 kDa outer membrane protein
Function and homology information
Biological speciesCampylobacter jejuni (Campylobacter)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.82 Å
AuthorsZhang Z / Gregor W / Maharjan R
Funding support United States, 1 items
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, 2026-
Header (metadata) releaseAug 12, 2026-
Map releaseAug 12, 2026-
UpdateAug 12, 2026-
Current statusAug 12, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_75037.png

Downloads & links

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Map

FileDownload / File: emd_75037.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.)
1.07 Å/pix.
x 300 pix.
= 321. Å		1.07 Å/pix.
x 300 pix.
= 321. Å		1.07 Å/pix.
x 300 pix.
= 321. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.07 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.1
Minimum - Maximum-0.47271848 - 1.0252378
Average (Standard dev.)-0.0012427588 (±0.022911396)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions300300300
Spacing300300300
CellA=B=C: 321.00003 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_75037_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_75037_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 : 50 kDa outer membrane protein

EntireName: 50 kDa outer membrane protein
Components
  • Complex: 50 kDa outer membrane protein
    • Protein or peptide: 50 kDa outer membrane protein

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Supramolecule #1: 50 kDa outer membrane protein

SupramoleculeName: 50 kDa outer membrane protein / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Campylobacter jejuni (Campylobacter)

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Macromolecule #1: 50 kDa outer membrane protein

MacromoleculeName: 50 kDa outer membrane protein / type: protein_or_peptide / ID: 1 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Campylobacter jejuni (Campylobacter)
Molecular weightTheoretical: 53.396598 KDa
SequenceString: MKTRFSLILS ACLLSSSLFA KNTDDEITKL QKQLAQIQAE LAQIRKEREA QVKQNEAVKA ELADLNDRAD ETEFQAALSK VKFGLEFST AVSNTNYKVS GQDYSANNKW MNELHLNMNA DINDKTKFYG RLSMAKNWSQ MGWSGTPYDL DAGRNTRSSG P VLYVDRAY ...String:
MKTRFSLILS ACLLSSSLFA KNTDDEITKL QKQLAQIQAE LAQIRKEREA QVKQNEAVKA ELADLNDRAD ETEFQAALSK VKFGLEFST AVSNTNYKVS GQDYSANNKW MNELHLNMNA DINDKTKFYG RLSMAKNWSQ MGWSGTPYDL DAGRNTRSSG P VLYVDRAY LDYYITPEWI ATVGRQPGTD GPGSNLRNNA LRQSTYPALA INALGDAAVI TYKPESLQDH KVAIRAAYGK TY QWDEESG KVRDWMSDQK DADANLYYAA VEGELPIEGM GDNLIIFNVA HMTDFALPIP GSMLLGDDDE VVNLGNLTLA NIH FENYKA FGTNFNWFAS LGYSNGSNNE INPLLSTALQ SKGYGNGKFN EKDGYAVHVG GRYDFTKALK VGYEFFWGSR YWYT MSRPS INDPLNIRMT RGTAHDFYVI YQLDRYQFLR LSYTNIQNIW GNRGLPFGGA KKDKARADNI MLMYNVKF

UniProtKB: 50 kDa outer membrane protein

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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
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k 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: 1.5 µm / Nominal defocus min: 0.7000000000000001 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: INSILICO MODEL
Final reconstructionResolution.type: BY AUTHOR / Resolution: 2.82 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 21652
Initial angle assignmentType: ANGULAR RECONSTITUTION
Final angle assignmentType: ANGULAR RECONSTITUTION
FSC plot (resolution estimation)

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