8YOA | pdb_00008yoa

Crystal structure of endolytic transglycosylase MltG

• PDB DOI: https://doi.org/10.2210/pdb8YOA/pdb

• Classification: LYASE
• Organism(s): Mycobacteroides abscessus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-03-13 Released: 2024-11-13 
• Deposition Author(s): Lee, G.H., Park, H.H.
• Funding Organization(s): National Research Foundation (NRF, Korea)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.219 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.181 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.183 (Depositor) 

Starting Model: in silico

Literature

Structure of MltG from Mycobacterium abscessus reveals structural plasticity between composed domains.

Lee, G.H., Kim, S., Kim, D.Y., Han, J.H., Lee, S.Y., Lee, J.H., Lee, C.S., Park, H.H.

(2024) IUCrJ 11: 903-909

• PubMed: 39297240 
• DOI: https://doi.org/10.1107/S2052252524008443
• Primary Citation of Related Structures:  
  8YOA


• PubMed Abstract: 
  

  MltG, a membrane-bound lytic transglycosylase, has roles in terminating glycan polymerization in peptidoglycan and incorporating glycan chains into the cell wall, making it significant in bacterial cell-wall biosynthesis and remodeling. This study provides the first reported MltG structure from Mycobacterium abscessus (maMltG), a superbug that has high antibiotic resistance. Our structural and biochemical analyses revealed that MltG has a flexible peptidoglycan-binding domain and exists as a monomer in solution. Further, the putative active site of maMltG was disclosed using structural analysis and sequence comparison. Overall, this study contributes to our understanding of the transglycosylation reaction of the MltG family, aiding the design of next-generation antibiotics targeting M. abscessus.

---

Organizational Affiliation: 
• College of Pharmacy, Chung-Ang University, Seoul 06974, Republic of Korea.
Unit of Research for Practical Application, Korea Polar Research Institute, Incheon 21990, Republic of Korea.
College of Pharmacy and Research Institute of Pharmaceutical Science, Gyeongsang National University, Jinju 52828, Republic of Korea.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: light scattering

Macromolecule Content 

• Total Structure Weight: 37.38 kDa 
• Atom Count: 2,771 
• Modeled Residue Count: 344 
• Deposited Residue Count: 344 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Endolytic murein transglycosylase	A	344	Mycobacteroides abscessus	Mutation(s): 0  Gene Names: yceG, mltG, ERS075579_00491 EC: 4.2.2 (PDB Primary Data), 4.2.2.29 (UniProt)
UniProt
Find proteins for A0A0U1AN13 (Mycobacteroides abscessus) Explore A0A0U1AN13  Go to UniProtKB:  A0A0U1AN13

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.219 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.181 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.183 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.22	α = 90
b = 63.24	β = 90
c = 123.56	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-11-13 
Deposition Author(s): Lee, G.H., Park, H.H.

---

Funding Organization	Location	Grant Number
National Research Foundation (NRF, Korea)	Korea, Republic Of	--

Revision History  

• Version 1.0: 2024-11-13
  Type: Initial release