DOE PAGES title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Controlled Enzyme Cargo Loading in Engineered Bacterial Microcompartment Shells

Journal Article · · Biochemistry

Bacterial microcompartments (BMCs) are nanometer-scale organelles with a protein-based shell that serve to colocalize and encapsulate metabolic enzymes. They may provide a range of benefits to improve pathway catalysis, including substrate channeling and selective permeability. Several groups are working toward using BMC shells as a platform for enhancing engineered metabolic pathways. The microcompartment shell of Haliangium ochraceum (HO) has emerged as a versatile and modular shell system that can be expressed and assembled outside its native host and with non-native cargo. Further, the HO shell has been modified to use the engineered protein conjugation system SpyCatcher–SpyTag for non-native cargo loading. Here, we used a model enzyme, triose phosphate isomerase (Tpi), to study non-native cargo loading into four HO shell variants and begin to understand maximal shell loading levels. We also measured activity of Tpi encapsulated in the HO shell variants and found that activity was determined by the amount of cargo loaded and was not strongly impacted by the predicted permeability of the shell variant to large molecules. All shell variants tested could be used to generate active, Tpi-loaded versions, but the simplest variants assembled most robustly. We propose that the simple variant is the most promising for continued development as a metabolic engineering platform.

Research Organization:
Michigan State University, East Lansing, MI (United States)
Sponsoring Organization:
USDOE Office of Science (SC), Basic Energy Sciences (BES)
Grant/Contract Number:
SC0023395
OSTI ID:
2528131
Journal Information:
Biochemistry, Journal Name: Biochemistry Journal Issue: 6 Vol. 64; ISSN 0006-2960
Publisher:
American Chemical Society (ACS)Copyright Statement
Country of Publication:
United States
Language:
English

References (29)

Probability-based protein identification by searching sequence databases using mass spectrometry data journal December 1999
CHARMM: The biomolecular simulation program journal July 2009
VMD: Visual molecular dynamics journal February 1996
MMTSB Tool Set: enhanced sampling and multiscale modeling methods for applications in structural biology journal May 2004
Structural Basis of Host Cell Recognition by the Pilus Adhesin from Streptococcus pneumoniae journal January 2010
The Plasticity of Molecular Interactions Governs Bacterial Microcompartment Shell Assembly journal May 2019
A designed bacterial microcompartment shell with tunable composition and precision cargo loading journal July 2019
In Vitro Encapsulation of Functionally Active Abiotic Photosensitizers Inside a Bacterial Microcompartment Shell journal July 2024
In Vitro Assembly of Diverse Bacterial Microcompartment Shell Architectures journal October 2018
Comparative Pore Structure and Dynamics for Bacterial Microcompartment Shell Protein Assemblies in Sheets or Shells journal July 2024
Structure and Function of a Bacterial Microcompartment Shell Protein Engineered to Bind a [4Fe-4S] Cluster journal January 2016
Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips journal August 2007
Programmed loading and rapid purification of engineered bacterial microcompartment shells journal July 2018
A catalog of the diversity and ubiquity of bacterial microcompartments journal June 2021
Short N-terminal sequences package proteins into bacterial microcompartments journal March 2010
Peptide tag forming a rapid covalent bond to a protein, through engineering a bacterial adhesin journal February 2012
Toward a glycyl radical enzyme containing synthetic bacterial microcompartment to produce pyruvate from formate and acetate journal February 2022
Elucidating Essential Role of Conserved Carboxysomal Protein CcmN Reveals Common Feature of Bacterial Microcompartment Assembly journal March 2012
Localization of Proteins to the 1,2-Propanediol Utilization Microcompartment by Non-native Signal Sequences Is Mediated by a Common Hydrophobic Motif journal August 2015
Structure of a Synthetic β -Carboxysome Shell journal September 2019
Structure of triosephosphate isomerase from Escherichia coli determined at 2.6 Å resolution journal July 1993
Evidence that a Metabolic Microcompartment Contains and Recycles Private Cofactor Pools journal April 2013
The N-Terminal Region of the Medium Subunit (PduD) Packages Adenosylcobalamin-Dependent Diol Dehydratase (PduCDE) into the Pdu Microcompartment journal August 2011
The Propanediol Utilization (pdu) Operon ofSalmonella enterica Serovar Typhimurium LT2 Includes Genes Necessary for Formation of Polyhedral Organelles Involved in Coenzyme B12-Dependent 1,2-Propanediol Degradation † journal January 1999
Microcompartments for B12-Dependent 1,2-Propanediol Degradation Provide Protection from DNA and Cellular Damage by a Reactive Metabolic Intermediate journal February 2008
A systems-level model reveals that 1,2-Propanediol utilization microcompartments enhance pathway flux through intermediate sequestration journal May 2017
Engineered Protein Nano-Compartments for Targeted Enzyme Localization journal March 2012
The PduQ Enzyme Is an Alcohol Dehydrogenase Used to Recycle NAD+ Internally within the Pdu Microcompartment of Salmonella enterica journal October 2012
Towards using bacterial microcompartments as a platform for spatial metabolic engineering in the industrially important and metabolically versatile Zymomonas mobilis journal January 2024