5MWV | pdb_00005mwv

Solid-state NMR Structure of outer membrane protein G in lipid bilayers

• PDB DOI: https://doi.org/10.2210/pdb5MWV/pdb
• BMRB: 34088

• Classification: MEMBRANE PROTEIN
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli
• Mutation(s): No 
• Membrane Protein: Yes  PDBTMMemProtMDmpstruc


• Deposited: 2017-01-20 Released: 2017-12-27 
• Deposition Author(s): Retel, J.S., Nieuwkoop, A.J., Hiller, M., Higman, V.A., Barbet-Massin, E., Stanek, J., Andreas, L.B., Franks, W.T., van Rossum, B.-J., Vinothkumar, K.R., Handel, L., de Palma, G.G., Bardiaux, B., Pintacuda, G., Emsley, L., Kuelbrandt, W., Oschkinat, H.
• Funding Organization(s): European Union, German Research Foundation

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Experimental Data Snapshot

• Method: SOLID-STATE NMR
• Conformers Calculated: 200 
• Conformers Submitted: 15 
• Selection Criteria: structures with the lowest energy 

Literature

Structure of outer membrane protein G in lipid bilayers.

Retel, J.S., Nieuwkoop, A.J., Hiller, M., Higman, V.A., Barbet-Massin, E., Stanek, J., Andreas, L.B., Franks, W.T., van Rossum, B.J., Vinothkumar, K.R., Handel, L., de Palma, G.G., Bardiaux, B., Pintacuda, G., Emsley, L., Kuhlbrandt, W., Oschkinat, H.

(2017) Nat Commun 8: 2073-2073

• PubMed: 29233991 
• DOI: https://doi.org/10.1038/s41467-017-02228-2
• Primary Citation Related Structures: 
  5MWV


• PubMed Abstract: 
  

  β-barrel proteins mediate nutrient uptake in bacteria and serve vital functions in cell signaling and adhesion. For the 14-strand outer membrane protein G of Escherichia coli, opening and closing is pH-dependent. Different roles of the extracellular loops in this process were proposed, and X-ray and solution NMR studies were divergent. Here, we report the structure of outer membrane protein G investigated in bilayers of E. coli lipid extracts by magic-angle-spinning NMR. In total, 1847 inter-residue ¹ H- ¹ H and ¹³ C- ¹³ C distance restraints, 256 torsion angles, but no hydrogen bond restraints are used to calculate the structure. The length of β-strands is found to vary beyond the membrane boundary, with strands 6-8 being the longest and the extracellular loops 3 and 4 well ordered. The site of barrel closure at strands 1 and 14 is more disordered than most remaining strands, with the flexibility decreasing toward loops 3 and 4. Loop 4 presents a well-defined helix.

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Organizational Affiliation: 
• Leibniz-Institut für Molekulare Pharmakologie, Robert-Rössle-Strasse 10, 13125, Berlin, Germany.
Centre de RMN à Très Hauts Champs, Institute des Sciences Analytiques (CNRS, ENS Lyon, UCB Lyon 1), Université de Lyon, 69100, Villeurbanne, France.
Max-Planck-Institut für Biophysik, Max-Von-Laue-Strasse 3, 60438, Frankfurt am Main, Germany.
Unité de Bioinformatique Structurale, CNRS UMR 3528, Institut Pasteur, 75015, Paris, France.
Institut des Sciences et Ingénierie Chimiques, Ecole Polytechnique Fédérale de Lausanne, CH-1015, Lausanne, Switzerland.
Leibniz-Institut für Molekulare Pharmakologie, Robert-Rössle-Strasse 10, 13125, Berlin, Germany. [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 32.94 kDa 
• Atom Count: 2,336 
• Modeled Residue Count: 281 
• Deposited Residue Count: 281 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Outer membrane protein G	A	281	Escherichia coli K-12	Mutation(s): 0  Gene Names: ompG, b1319, JW1312 Membrane Entity: Yes
UniProt
Find proteins for P76045 (Escherichia coli (strain K12)) Explore P76045  Go to UniProtKB:  P76045

Experimental Data & Validation

Experimental Data

• Method: SOLID-STATE NMR
• Conformers Calculated: 200 
• Conformers Submitted: 15 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2017-12-27 
Deposition Author(s): Retel, J.S., Nieuwkoop, A.J., Hiller, M., Higman, V.A., Barbet-Massin, E., Stanek, J., Andreas, L.B., Franks, W.T., van Rossum, B.-J., Vinothkumar, K.R., Handel, L., de Palma, G.G., Bardiaux, B., Pintacuda, G., Emsley, L., Kuelbrandt, W., Oschkinat, H.

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Funding Organization	Location	Grant Number
European Union	Germany	BioNMR / 261863
European Union		iNext / GA 653706
German Research Foundation	Germany	SFB 740
German Research Foundation	Germany	OS106/9

Revision History  

• Version 1.0: 2017-12-27
  Type: Initial release
  
• Version 1.1: 2019-08-21
  Changes: Data collection
• Version 1.2: 2024-05-15
  Changes: Data collection, Database references