Crystal Structure of pks13-ACP domain from Corynebacterium diphtheriae

Experimental Data Snapshot

  • Resolution: 1.79 Å
  • R-Value Free: 0.213 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.197 

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Crystal structures of FadD32 and pks13-ACP domain from Corynebacterium diphtheriae.

Chen, R.Yuan, J.Shi, X.Tang, W.Liu, X.

(2022) Biochem Biophys Res Commun 590: 152-157

  • DOI: https://doi.org/10.1016/j.bbrc.2021.12.083
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Mycolic acids (MAs) are unique components of cell envelope of Mycobacterium or Corynebacterium and are key factors of their virulence to human. In order to develop new anti-Tuberculosis (TB) drugs, many efforts have paid on investigation of structures and functions of proteins involved in the biosynthesis pathway of MAs. FadD32 and polyketide synthase 13 (pks13) catalyze the last step of MAs synthesis. Here we present the crystal structures of FadD32 with substrates and holo-form of ACP-domain from Corynebacterium diphtheriae. The crystal structures and in vitro biochemical assays provide new insights into the assembly of FadD32 and pks13.

  • Organizational Affiliation

    State Key Laboratory of Medicinal Chemical Biology, Frontiers Science Center for Cell Responses, College of Life Sciences, Nankai University, 300071, Tianjin, China.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Polyketide synthase involved in mycolic acid biosynthesis85Corynebacterium diphtheriae C7 (beta)Mutation(s): 0 
Find proteins for Q6NES8 (Corynebacterium diphtheriae (strain ATCC 700971 / NCTC 13129 / Biotype gravis))
Explore Q6NES8 
Go to UniProtKB:  Q6NES8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6NES8
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PNS (Subject of Investigation/LOI)
Query on PNS

Download Ideal Coordinates CCD File 
C11 H23 N2 O7 P S
Experimental Data & Validation

Experimental Data

  • Resolution: 1.79 Å
  • R-Value Free: 0.213 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.197 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 48.886α = 90
b = 48.886β = 90
c = 111.882γ = 90
Software Package:
Software NamePurpose
SCALEPACKdata scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction

Structure Validation

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Ligand Structure Quality Assessment 

Entry History & Funding Information

Deposition Data

  • Released Date: 2022-02-23 
  • Deposition Author(s): Liu, X.

Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2022-02-23
    Type: Initial release
  • Version 1.1: 2023-11-29
    Changes: Data collection, Refinement description