7BZ6 | pdb_00007bz6

Mycobacterium bovis AhpC

• PDB DOI: https://doi.org/10.2210/pdb7BZ6/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Mycobacterium tuberculosis variant bovis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2020-04-27 Released: 2021-03-10 
• Deposition Author(s): Chong, S.M.S., Neelagandan, K., Gruber, G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.30 Å
• R-Value Free: 
  0.344 (Depositor), 0.342 (DCC) 
• R-Value Work: 
  0.309 (Depositor), 0.311 (DCC) 
• R-Value Observed: 
  0.311 (Depositor) 

Starting Model: experimental

Literature

Residues of helix alpha2 are critical for catalytic efficiency of mycobacterial alkylhydroperoxide reductase subunit C.

Chong, S.M.S., Kamariah, N., Gruber, G.

(2020) FEBS Lett 594: 2829-2839

• PubMed: 32557576 
• DOI: https://doi.org/10.1002/1873-3468.13864
• Primary Citation Related Structures: 
  7BZ6


• PubMed Abstract: 
  

  The ability of Mycobacteria to overcome oxidative stress is of paramount importance for its survival within the host. One of the key enzymes that are involved in protecting the bacterium from reactive oxygen species is the catalase-peroxidase (KatG). However, in strains resistant to the antibiotic isoniazid, KatG is rendered ineffective, which is associated with an increased expression of alkylhydroperoxide reductase subunit C (AhpC). Mycobacterial AhpC possesses a unique helical displacement when compared to its bacterial counterparts. Here, via mutagenesis studies, we demonstrate the importance of this helix for redox modulation of the catalytic activity of AhpC. Along with structural insights from crystallographic data, the impact of critical residues on the structure and flexibility of the helix and on AhpC oligomerization is described.

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Organizational Affiliation: 
• School of Biological Sciences, Nanyang Technological University, Singapore, Republic of Singapore.
School of Physical and Mathematical Sciences, Nanyang Technological University, Singapore, Republic of Singapore.
Nanyang Institute of Technology in Health and Medicine, Interdisciplinary Graduate School, Nanyang Technological University, Singapore, Republic of Singapore.

Biological Assembly 1  

Global Symmetry: Dihedral - D6  (Explore in 3D)
Global Stoichiometry: Homo 12-mer - A12 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: light scattering

Macromolecule Content 

• Total Structure Weight: 44.89 kDa 
• Atom Count: 2,753 
• Modeled Residue Count: 349 
• Deposited Residue Count: 402 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alkyl hydroperoxide reductase C peptide	A, B	201	Mycobacterium tuberculosis variant bovis	Mutation(s): 2  Gene Names: ahpC EC: 1.11.1.28
UniProt
Find proteins for Q79CV0 (Mycobacterium bovis) Explore Q79CV0  Go to UniProtKB:  Q79CV0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.30 Å
• R-Value Free:  0.344 (Depositor), 0.342 (DCC) 
• R-Value Work:  0.309 (Depositor), 0.311 (DCC) 
• R-Value Observed: 0.311 (Depositor) 

Space Group: P 6 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 137.554	α = 90
b = 137.554	β = 90
c = 96.842	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2021-03-10 
Deposition Author(s): Chong, S.M.S., Neelagandan, K., Gruber, G.

Revision History  

• Version 1.0: 2021-03-10
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Database references, Refinement description