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- PDB-8oj4: Structure of the MlaCD complex (1:6 stoichiometry) -

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Basic information

Entry
Database: PDB / ID: 8oj4
TitleStructure of the MlaCD complex (1:6 stoichiometry)
Components
  • ABC transporter substrate-binding protein
  • ABC-type organic solvent transporter
KeywordsLIPID BINDING PROTEIN / Outer membrane / gram-negative bacteria / lipid transfer / antibiotic resistance
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 (bacteria)
Escherichia coli (E. coli)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 4.35 Å
AuthorsWotherspoon, P. / Bui, S. / Sridhar, P. / Bergeron, J.R.C. / Knowles, T.J.
Funding support United Kingdom, 1items
OrganizationGrant numberCountry
Biotechnology and Biological Sciences Research Council (BBSRC)BB/R019061/2 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, B.F. / Bryant, J.A. / Hughes, G.W. / Stansfeld, P.J. / Bergeron, J.R.C. / Knowles, T.J.
History
DepositionMar 23, 2023Deposition site: PDBE / Processing site: PDBE
Revision 1.0Jul 10, 2024Provider: repository / Type: Initial release

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
H: ABC transporter substrate-binding protein
A: ABC-type organic solvent transporter
B: ABC-type organic solvent transporter
C: ABC-type organic solvent transporter
D: ABC-type organic solvent transporter
E: ABC-type organic solvent transporter
F: ABC-type organic solvent transporter


Theoretical massNumber of molelcules
Total (without water)141,5487
Polymers141,5487
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
  • Evidence: light scattering
TypeNameSymmetry operationNumber
identity operation1_5551

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Components

#1: Protein ABC transporter substrate-binding protein


Mass: 23989.559 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Escherichia (bacteria) / Gene: mlaC / Production host: Escherichia (bacteria) / References: UniProt: J7Q9Y1
#2: Protein
ABC-type organic solvent transporter


Mass: 19593.133 Da / Num. of mol.: 6
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Escherichia coli (E. coli) / Gene: mlaD / Production host: Escherichia coli (E. coli) / References: UniProt: C3SSC7

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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: MlaCD / Type: COMPLEX / Entity ID: all / Source: RECOMBINANT
Source (natural)Organism: Escherichia coli (E. coli)
Source (recombinant)Organism: Escherichia coli (E. coli)
Buffer solutionpH: 8
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: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELD / Nominal defocus max: 2000 nm / Nominal defocus min: 500 nm
Image recordingElectron dose: 40 e/Å2 / Film or detector model: GATAN K3 (6k x 4k)

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Processing

SoftwareName: PHENIX / Version: 1.18rc3_3805: / Classification: refinement
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
3D reconstructionResolution: 4.35 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 97460 / Symmetry type: POINT
Refine LS restraints
Refine-IDTypeDev idealNumber
ELECTRON MICROSCOPYf_bond_d0.0037110
ELECTRON MICROSCOPYf_angle_d0.5949681
ELECTRON MICROSCOPYf_dihedral_angle_d4.706988
ELECTRON MICROSCOPYf_chiral_restr0.0451140
ELECTRON MICROSCOPYf_plane_restr0.0051250

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