6NER

Synthetic Haliangium ochraceum BMC shell


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.59 Å
  • R-Value Free: 0.210 
  • R-Value Work: 0.171 
  • R-Value Observed: 0.171 

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This is version 1.2 of the entry. See complete history


Literature

Structural Characterization of a Synthetic Tandem-Domain Bacterial Microcompartment Shell Protein Capable of Forming Icosahedral Shell Assemblies.

Sutter, M.McGuire, S.Ferlez, B.Kerfeld, C.A.

(2019) ACS Synth Biol 8: 668-674

  • DOI: https://doi.org/10.1021/acssynbio.9b00011
  • Primary Citation of Related Structures:  
    6NER

  • PubMed Abstract: 

    Bacterial microcompartments are subcellular compartments found in many prokaryotes; they consist of a protein shell that encapsulates enzymes that perform a variety of functions. The shell protects the cell from potentially toxic intermediates and colocalizes enzymes for higher efficiency. Accordingly, it is of considerable interest for biotechnological applications. We have previously structurally characterized an intact 40 nm shell comprising three different types of proteins. One of those proteins, BMC-H, forms a cyclic hexamer; here we have engineered a synthetic protein that consists of a tandem duplication of BMC-H connected by a short linker. The synthetic protein forms cyclic trimers that self-assemble to form a smaller (25 nm) icosahedral shell with gaps at the pentamer positions. When coexpressed in vivo with the pentamer fused to an affinity tag we can purify complete icosahedral shells. This engineered shell protein constitutes a minimal shell system to study permeability; reducing symmetry from 6- to 3-fold will allow for finer control of the pore environment. We have determined a crystal structure of this shell to guide rational engineering of this microcompartment shell for biotechnological applications.


  • Organizational Affiliation

    Environmental Genomics and Systems Biology and Molecular Biophysics and Integrative Bioimaging Divisions , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , United States.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
BMC-H tandem fusion protein213Haliangium ochraceumMutation(s): 0 
Gene Names: Hoch_5815
UniProt
Find proteins for D0LID5 (Haliangium ochraceum (strain DSM 14365 / JCM 11303 / SMP-2))
Explore D0LID5 
Go to UniProtKB:  D0LID5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0LID5
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.59 Å
  • R-Value Free: 0.210 
  • R-Value Work: 0.171 
  • R-Value Observed: 0.171 
  • Space Group: P 21 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 325.513α = 90
b = 325.513β = 90
c = 325.513γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-04-03
    Type: Initial release
  • Version 1.1: 2019-05-01
    Changes: Data collection, Database references
  • Version 1.2: 2023-10-11
    Changes: Data collection, Database references, Refinement description