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- EMDB-16913: Structure of the MlaCD complex (2:6 stoichiometry) -

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Basic information

Entry
Database: EMDB / ID: EMD-16913
TitleStructure of the MlaCD complex (2:6 stoichiometry)
Map data
Sample
  • Complex: MlaCD (2:6 stoichiometry)
    • Protein or peptide: ABC transporter substrate-binding protein
    • Protein or peptide: ABC-type organic solvent transporter
KeywordsOuter membrane / phospholipids / gram-negative bacteria / lipid transport
Function / homology
Function and homology information


phospholipid transporter activity / phospholipid binding / extracellular region
Similarity search - Function
Tgt2/MlaC superfamily / Toluene tolerance Ttg2/phospholipid-binding protein MlaC / MlaC protein / Probable phospholipid ABC transporter-binding protein MlaD / Mce/MlaD / MlaD protein
Similarity search - Domain/homology
ABC-type organic solvent transporter / ABC transporter substrate-binding protein
Similarity search - Component
Biological speciesEscherichia coli (E. coli)
Methodsingle particle reconstruction / cryo EM / Resolution: 4.38 Å
AuthorsWotherspoon P / Bui S / Sridhar P / Bergeron JRC / Knowles TJ
Funding support United Kingdom, 1 items
OrganizationGrant numberCountry
Biotechnology and Biological Sciences Research Council (BBSRC) United Kingdom
CitationJournal: To Be Published
Title: The structure of the MlaC-MlaD complex reveals novel insights into periplasmic phospholipid transport processes
Authors: Wotherspoon P / Bui S / Sridhar P / Ratkeviciute G / Colburn J / Johnston H / Cooper BF / Bryant JA / Hughes GW / Stransfeld PJ / Bergeron JRC / Knowles TJ
History
DepositionMar 24, 2023-
Header (metadata) releaseJul 10, 2024-
Map releaseJul 10, 2024-
UpdateJul 10, 2024-
Current statusJul 10, 2024Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_16913.png

Downloads & links

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Map

FileDownload / File: emd_16913.map.gz / Format: CCP4 / Size: 163.6 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Voxel sizeX=Y=Z: 0.71 Å
Density
Contour LevelBy AUTHOR: 0.1
Minimum - Maximum-0.29244334 - 0.43565294
Average (Standard dev.)0.0010002712 (±0.012610169)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions350350350
Spacing350350350
CellA=B=C: 248.5 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : MlaCD (2:6 stoichiometry)

EntireName: MlaCD (2:6 stoichiometry)
Components
  • Complex: MlaCD (2:6 stoichiometry)
    • Protein or peptide: ABC transporter substrate-binding protein
    • Protein or peptide: ABC-type organic solvent transporter

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Supramolecule #1: MlaCD (2:6 stoichiometry)

SupramoleculeName: MlaCD (2:6 stoichiometry) / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #2, #1
Source (natural)Organism: Escherichia coli (E. coli)

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Macromolecule #1: ABC-type organic solvent transporter

MacromoleculeName: ABC-type organic solvent transporter / type: protein_or_peptide / ID: 1 / Number of copies: 6 / Enantiomer: LEVO
Source (natural)Organism: Escherichia coli (E. coli)
Molecular weightTheoretical: 19.593133 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
MQTKKNEIWV GIFLLAALLA ALFVCLKAAN VTSIRTEPTY TLYATFDNIG GLKARSPVSI GGVVVGRVAD ITLDPKTYLP RVTLEIEQR YNHIPDTSSL SIRTSGLLGE QYLALNVGFE DPELGTAILK DGDTIQDTKS AMVLEDLIGQ FLYGSKGDDN K NSGDAPAA APGNNETTEP VGTTK

UniProtKB: ABC-type organic solvent transporter

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Macromolecule #2: ABC transporter substrate-binding protein

MacromoleculeName: ABC transporter substrate-binding protein / type: protein_or_peptide / ID: 2 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Escherichia coli (E. coli)
Molecular weightTheoretical: 23.989559 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: MFKRLMMVAL LVIAPLSAAT AADQTNPYKL MDEAAQKTFD RLKNEQPQIR ANPDYLRTIV DQELLPYVQV KYAGALVLGQ YYKSATPAQ REAYFAAFRE YLKQAYGQAL AMYHGQTYQI APEQPLGDKT IVPIRVTIID PNGRPPVRLD FQWRKNSQTG N WQAYDMIA ...String:
MFKRLMMVAL LVIAPLSAAT AADQTNPYKL MDEAAQKTFD RLKNEQPQIR ANPDYLRTIV DQELLPYVQV KYAGALVLGQ YYKSATPAQ REAYFAAFRE YLKQAYGQAL AMYHGQTYQI APEQPLGDKT IVPIRVTIID PNGRPPVRLD FQWRKNSQTG N WQAYDMIA EGVSMITTKQ NEWGTLLRTK GIDGLTAQLK SISQQKITLE EKK

UniProtKB: ABC transporter substrate-binding 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: 8
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 40.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 0.5 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: 4.38 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 58259
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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