8Q7Y

ESIBD structure of beta-galactosidase

  • Classification: HYDROLASE
  • Organism(s): Escherichia coli K-12
  • Expression System: Escherichia coli K-12
  • Mutation(s): No 

  • Deposited: 2023-08-17 Released: 2024-01-10 
  • Deposition Author(s): Esser, T., Boehning, J., Bharat, T.A.M., Rauschenbach, S.
  • Funding Organization(s): Biotechnology and Biological Sciences Research Council (BBSRC), Medical Research Council (MRC, United Kingdom), Human Frontier Science Program (HFSP), Engineering and Physical Sciences Research Council, The Vallee Foundation Inc., European Molecular Biology Organization (EMBO), Leverhulme Trust, The Lister Institute of Preventive Medicine, Wellcome Trust, Royal Society

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Cryo-EM of soft-landed beta-galactosidase: Gas-phase and native structures are remarkably similar.

Esser, T.K.Bohning, J.Onur, A.Chinthapalli, D.K.Eriksson, L.Grabarics, M.Fremdling, P.Konijnenberg, A.Makarov, A.Botman, A.Peter, C.Benesch, J.L.P.Robinson, C.V.Gault, J.Baker, L.Bharat, T.A.M.Rauschenbach, S.

(2024) Sci Adv 10: eadl4628-eadl4628

  • DOI: https://doi.org/10.1126/sciadv.adl4628
  • Primary Citation of Related Structures:  
    8Q7Y

  • PubMed Abstract: 

    Native mass spectrometry (MS) has become widely accepted in structural biology, providing information on stoichiometry, interactions, homogeneity, and shape of protein complexes. Yet, the fundamental assumption that proteins inside the mass spectrometer retain a structure faithful to native proteins in solution remains a matter of intense debate. Here, we reveal the gas-phase structure of β-galactosidase using single-particle cryo-electron microscopy (cryo-EM) down to 2.6-Å resolution, enabled by soft landing of mass-selected protein complexes onto cold transmission electron microscopy (TEM) grids followed by in situ ice coating. We find that large parts of the secondary and tertiary structure are retained from the solution. Dehydration-driven subunit reorientation leads to consistent compaction in the gas phase. By providing a direct link between high-resolution imaging and the capability to handle and select protein complexes that behave problematically in conventional sample preparation, the approach has the potential to expand the scope of both native mass spectrometry and cryo-EM.


  • Organizational Affiliation

    Department of Chemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, UK.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Beta-galactosidase
A, B, C, D
1,024Escherichia coli K-12Mutation(s): 0 
Gene Names: lacZ
EC: 3.2.1.23
UniProt
Find proteins for P00722 (Escherichia coli (strain K12))
Explore P00722 
Go to UniProtKB:  P00722
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP00722
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC
MODEL REFINEMENTPHENIX1.20

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomEP/V051474/1
Medical Research Council (MRC, United Kingdom)United KingdomMC UP 1201/31
Human Frontier Science Program (HFSP)FranceRGY0074/2021
Engineering and Physical Sciences Research CouncilUnited KingdomEP/V026623/1
The Vallee Foundation Inc.United States--
European Molecular Biology Organization (EMBO)European Union--
Leverhulme TrustUnited Kingdom--
The Lister Institute of Preventive MedicineUnited Kingdom--
Wellcome TrustUnited Kingdom104633/Z/14/Z
Royal SocietyUnited KingdomNIF/R1/192285

Revision History  (Full details and data files)

  • Version 1.0: 2024-01-10
    Type: Initial release
  • Version 1.1: 2024-03-06
    Changes: Database references