8DMF | pdb_00008dmf

Cryo-EM structure of the ribosome-bound Bacteroides thetaiotaomicron EF-G2


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 8DMF

This is version 1.1 of the entry. See complete history

Literature

Gut colonization by Bacteroides requires translation by an EF-G paralog lacking GTPase activity.

Han, W.Peng, B.Z.Wang, C.Townsend 2nd, G.E.Barry, N.A.Peske, F.Goodman, A.L.Liu, J.Rodnina, M.V.Groisman, E.A.

(2022) EMBO J : e112372-e112372

  • DOI: https://doi.org/10.15252/embj.2022112372
  • Primary Citation Related Structures: 
    8DMF

  • PubMed Abstract: 

    Protein synthesis is crucial for cell growth and survival yet one of the most energy-consuming cellular processes. How, then, do cells sustain protein synthesis under starvation conditions when energy is limited? To accelerate the translocation of mRNA-tRNAs through the ribosome, bacterial elongation factor G (EF-G) hydrolyzes energy-rich guanosine triphosphate (GTP) for every amino acid incorporated into a protein. Here, we identify an EF-G paralog-EF-G2-that supports translocation without hydrolyzing GTP in the gut commensal bacterium Bacteroides thetaiotaomicron. EF-G2's singular ability to sustain protein synthesis, albeit at slow rates, is crucial for bacterial gut colonization. EF-G2 is ~10-fold more abundant than canonical EF-G1 in bacteria harvested from murine ceca and, unlike EF-G1, specifically accumulates during carbon starvation. Moreover, we uncover a 26-residue region unique to EF-G2 that is essential for protein synthesis, EF-G2 dissociation from the ribosome, and responsible for the absence of GTPase activity. Our findings reveal how cells curb energy consumption while maintaining protein synthesis to advance fitness in nutrient-fluctuating environments.


  • Organizational Affiliation
    • Department of Microbial Pathogenesis, Yale School of Medicine, New Haven, CT, USA.

Macromolecule Content 

  • Total Structure Weight: 80.9 kDa 
  • Atom Count: 5,670 
  • Modeled Residue Count: 718 
  • Deposited Residue Count: 718 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Tetracycline resistance protein TetQ718Bacteroides thetaiotaomicron VPI-5482Mutation(s): 0 
Gene Names: BT_2167
UniProt
Find proteins for Q8A5S1 (Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / JCM 5827 / CCUG 10774 / NCTC 10582 / VPI-5482 / E50))
Explore Q8A5S1 
Go to UniProtKB:  Q8A5S1
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8A5S1
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2023-01-04
    Type: Initial release
  • Version 1.1: 2024-06-12
    Changes: Data collection