Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 32.37 kDa 
• Atom Count: 2410 
• Modelled Residue Count: 306 
• Deposited Residue Count: 308 
• Unique protein chains: 1

5XDW

Staphylococcus aureus FtsZ 12-316 G196S

• PDB DOI: 10.2210/pdb5XDW/pdb

• Classification: HYDROLASE
• Organism(s): Staphylococcus aureus subsp. aureus MRSA252
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2017-03-30 Released: 2017-08-02 
• Deposition Author(s): Fujita, J., Maeda, Y., Mizohata, E., Inoue, T., Kaul, M., Parhi, A.K., LaVoie, E.J., Pilch, D.S., Matsumura, H.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), Japan Society for the Promotion of Science

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.236 
• R-Value Work: 0.188 
• R-Value Observed: 0.190 

Literature

Structural Flexibility of an Inhibitor Overcomes Drug Resistance Mutations in Staphylococcus aureus FtsZ

Fujita, J., Maeda, Y., Mizohata, E., Inoue, T., Kaul, M., Parhi, A.K., LaVoie, E.J., Pilch, D.S., Matsumura, H.

(2017) ACS Chem Biol 12: 1947-1955

• PubMed: 28621933 
• DOI: 10.1021/acschembio.7b00323
• Primary Citation of Related Structures:  
  5XDT, 5XDU, 5XDV, 5XDW


• PubMed Abstract: 
  

In the effort to combat antibiotic resistance, inhibitors of the essential bacterial protein FtsZ have emerged as a promising new class of compounds with clinical potential. One such FtsZ inhibitor (TXA707) is associated with potent activity against clinical isolates of methicillin-resistant Staphylococcus aureus (MRSA) that are resistant to current standard-of-care antibiotics. However, mutations in S. aureus FtsZ (SaFtsZ) that confer resistance to TXA707 have been observed, with mutations in the Gly196 and Gly193 residues being among the most prevalent. Here, we describe structural studies of an FtsZ inhibitor, TXA6101, which retains activity against MRSA isolates that express either G196S or G193D mutant FtsZ. We present the crystal structures of TXA6101 in complex with both wild-type SaFtsZ and G196S mutant SaFtsZ, as well the crystal structure of TXA707 in complex with wild-type SaFtsZ. Comparison of the three structures reveals a molecular basis for the differential targeting abilities of TXA6101 and TXA707. The greater structural flexibility of TXA6101 relative to TXA707 enables TXA6101 to avoid steric clashes with Ser196 and Asp193. Our structures also demonstrate that the binding of TXA6101 induces previously unobserved conformational rearrangements of SaFtsZ residues in the binding pocket. In aggregate, the structures reported in this work reveal key factors for overcoming drug resistance mutations in SaFtsZ and offer a structural basis for the design of FtsZ inhibitors with enhanced antibacterial potency and reduced susceptibility to mutational resistance.

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Organizational Affiliation: 

Department of Biotechnology, College of Life Sciences, Ritsumeikan University , 1-1-1 Noji-higashi, Shiga 525-8577, Japan.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cell division protein FtsZ	A	308	Staphylococcus aureus subsp. aureus MRSA252	Mutation(s): 1  Gene Names: ftsZ, SAR1162
UniProt
Find proteins for Q6GHP9 (Staphylococcus aureus (strain MRSA252)) Explore Q6GHP9  Go to UniProtKB:  Q6GHP9

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GDP	B [auth A]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
CA	C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.236 
• R-Value Work: 0.188 
• R-Value Observed: 0.190 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.764	α = 90
b = 51.011	β = 110.71
c = 88.328	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2017-03-30 
• Released Date: 2017-08-02 
Deposition Author(s): Fujita, J., Maeda, Y., Mizohata, E., Inoue, T., Kaul, M., Parhi, A.K., LaVoie, E.J., Pilch, D.S., Matsumura, H.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI118874
Japan Society for the Promotion of Science	Japan	15J00589
Japan Society for the Promotion of Science	Japan	24109017
Japan Society for the Promotion of Science	Japan	15H04443
Japan Society for the Promotion of Science	Japan	26102526
Japan Society for the Promotion of Science	Japan	16H00783

Revision History  

• Version 1.0: 2017-08-02
  Type: Initial release
  
• Version 1.1: 2017-10-18
  Changes: Author supporting evidence
• Version 1.2: 2022-03-23
  Changes: Author supporting evidence, Database references, Derived calculations