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Basic information

Entry
Database: EMDB / ID: EMD-66201
TitleLamB binding with bacteriophage Lom
Map data
Sample
  • Complex: outer membrane complex of LamB and Los
    • Protein or peptide: Maltoporin
    • Protein or peptide: Outer membrane protein lom
Keywordsmembrane protein / phage protein / complex / VIRAL PROTEIN
Biological speciesEscherichia phage Lambda (virus) / Shigella sonnei (strain Ss046) (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.45 Å
AuthorsGe XF / Wang JW
Funding support China, 3 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)32501078 China
National Natural Science Foundation of China (NSFC)32371254 China
National Natural Science Foundation of China (NSFC)32171190 China
CitationJournal: To Be Published
Title: LamB binding with bacteriophage Lom
Authors: Ge XF / Wang JW
History
DepositionSep 14, 2025-
Header (metadata) releaseJul 1, 2026-
Map releaseJul 1, 2026-
UpdateJul 1, 2026-
Current statusJul 1, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_66201.png

Downloads & links

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Map

FileReleased
Voxel sizeX=Y=Z: 1.036 Å
Density
Contour LevelBy AUTHOR: 0.46
Minimum - Maximum-1.43549 - 2.0639215
Average (Standard dev.)0.0004291414 (±0.04457195)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions320320320
Spacing320320320
CellA=B=C: 331.52002 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : outer membrane complex of LamB and Los

EntireName: outer membrane complex of LamB and Los
Components
  • Complex: outer membrane complex of LamB and Los
    • Protein or peptide: Maltoporin
    • Protein or peptide: Outer membrane protein lom

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Supramolecule #1: outer membrane complex of LamB and Los

SupramoleculeName: outer membrane complex of LamB and Los / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Escherichia phage Lambda (virus)

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Macromolecule #1: Maltoporin

MacromoleculeName: Maltoporin / type: protein_or_peptide / ID: 1 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Shigella sonnei (strain Ss046) (bacteria)
Molecular weightTheoretical: 47.568004 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: AVDFHGYARS GIGWTGSGGE QQCFQTTGAQ SKYRLGNECE TYAELKLGQE VWKEGDKSFY FDTNVAYSVA QQNDWEATDP AFREANVQG KNLIEWLPGS TIWAGKRFYQ RHDVHMIDFY YWDISGPGAG LENIDVGFGK LSLAATRSSE AGGSSSFASN N IYDYTNET ...String:
AVDFHGYARS GIGWTGSGGE QQCFQTTGAQ SKYRLGNECE TYAELKLGQE VWKEGDKSFY FDTNVAYSVA QQNDWEATDP AFREANVQG KNLIEWLPGS TIWAGKRFYQ RHDVHMIDFY YWDISGPGAG LENIDVGFGK LSLAATRSSE AGGSSSFASN N IYDYTNET ANDVFDVRLA QMEINPGGTL ELGVDYGRAN LRDNYRLVDG ASKDGWLFTA EHTQSVLKGF NKFVVQYATD SM TSQGKGL SQGSGVAFDN EKFAYNINNN GHMLRILDHG AISMGDNWDM MYVGMYQDIN WDNDNGTKWW TVGIRPMYKW TPI MSTVME IGYDNVESQR TGDKNNQYKI TLAQQWQAGD SIWSRPAIRV FATYAKWDEK WGYDYNGDSK VNPNYGKAVP ADFN GGSFG RGDSDEWTFG AQMEIWW

UniProtKB: Maltoporin

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Macromolecule #2: Outer membrane protein lom

MacromoleculeName: Outer membrane protein lom / type: protein_or_peptide / ID: 2 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Escherichia phage Lambda (virus)
Molecular weightTheoretical: 21.879734 KDa
Recombinant expressionOrganism: Escherichia phage Lambda (virus)
SequenceString: MRNVCIAVAV FAALAVTVTP ARAEGGHGTF TVGYFQVKPG TLPSLSGGDT GVSHLKGINV KYRYELTDSV GVMASLGFAA SKKSSTVMT GEDTFHYESL RGRYVSVMAG PVLQISKQVS AYAMAGVAHS RWSGSTMDYR KTEITPGYMK ETTTARDESA M RHTSVAWS ...String:
MRNVCIAVAV FAALAVTVTP ARAEGGHGTF TVGYFQVKPG TLPSLSGGDT GVSHLKGINV KYRYELTDSV GVMASLGFAA SKKSSTVMT GEDTFHYESL RGRYVSVMAG PVLQISKQVS AYAMAGVAHS RWSGSTMDYR KTEITPGYMK ETTTARDESA M RHTSVAWS AGIQINPAAS VVVDIAYEGS GSGDWRTDGF IVGVGYKF

UniProtKB: Outer membrane protein lom

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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: 8
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI POLARA 300
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: 2.5 µm / Nominal defocus min: 1.5 µm
Experimental equipment
Model: Tecnai Polara / Image courtesy: FEI Company

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Image processing

CTF correctionType: NONE
Startup modelType of model: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.45 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 144910
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

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