6AD3 | pdb_00006ad3

Structural characterization of the condensation domain from Monacolin K polyketide synthase MokA

• PDB DOI: https://doi.org/10.2210/pdb6AD3/pdb

• Classification: BIOSYNTHETIC PROTEIN
• Organism(s): Monascus pilosus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2018-07-30 Released: 2019-04-03 
• Deposition Author(s): Wang, L., Zheng, J.
• Funding Organization(s): National Natural Science Foundation of China

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free: 
  0.206 (Depositor), 0.211 (DCC) 
• R-Value Work: 
  0.176 (Depositor), 0.189 (DCC) 
• R-Value Observed: 
  0.178 (Depositor) 

Literature

Crystal structure of the condensation domain from lovastatin polyketide synthase.

Wang, L., Yuan, M., Zheng, J.

(2019) Synth Syst Biotechnol 4: 10-15

• PubMed: 30533541 
• DOI: https://doi.org/10.1016/j.synbio.2018.11.003
• Primary Citation Related Structures: 
  6AD3


• PubMed Abstract: 
  

  The highly reducing iterative polyketide synthases responsible for lovastatin biosynthesis contains a section homologous to condensation (CON) domain observed in nonribosomal peptide synthetases (NRPSs). In the present study, we expressed the isolated lovastatin CON domain and solved the crystal structure to 1.79 Å resolution. The overall structure shows similarity to canonical condensation domains of NRPSs, containing the N-terminal and C-terminal subdomains that resemble enzymes of chloramphenicol acetyltransferase family, whereas distinct structural features are observed at the active site. The acceptor entry of the substrate channel is blocked by a flexible loop, thereby preventing the loading of substrate for a new round of chain elongation. The mutation of conserved catalytic motif located at the midpoint of substrate channel agrees with the incapability of CON to catalyzed amide-bond formation. The structure helps to understand the function of CON in lovastatin biosynthesis.

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Organizational Affiliation: 
• State Key Laboratory of Microbial Metabolism, and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 57.45 kDa 
• Atom Count: 3,788 
• Modeled Residue Count: 450 
• Deposited Residue Count: 519 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lovastatin nonaketide synthase mokA	A	519	Monascus pilosus	Mutation(s): 1  Gene Names: mokA EC: 2.3.1.161
UniProt
Find proteins for Q3S2T9 (Monascus pilosus) Explore Q3S2T9  Go to UniProtKB:  Q3S2T9

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free:  0.206 (Depositor), 0.211 (DCC) 
• R-Value Work:  0.176 (Depositor), 0.189 (DCC) 
• R-Value Observed: 0.178 (Depositor) 

Space Group: P 2₁ 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.101	α = 90
b = 64.042	β = 90
c = 173.196	γ = 90

Software Package:

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

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2019-04-03 
Deposition Author(s): Wang, L., Zheng, J.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China	China	31370101
National Natural Science Foundation of China	China	31570056

Revision History  

• Version 1.0: 2019-04-03
  Type: Initial release
  
• Version 1.1: 2024-03-27
  Changes: Data collection, Database references