3TFL

LytR-Cps2a-Psr family protein with bound octaprenyl pyrophosphate lipid

• PDB DOI: https://doi.org/10.2210/pdb3TFL/pdb

• Classification: TRANSFERASE
• Organism(s): Streptococcus pneumoniae
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2011-08-16 Released: 2011-10-12 
• Deposition Author(s): Kawai, Y., Marles-Wright, J., Cleverley, R.M., Emmins, R., Ishikawa, S., Kuwano, M., Heinz, N., Khai Bui, N., Hoyland, C.N., Ogasawara, N., Lewis, R.J., Vollmer, W., Daniel, R.A., Errington, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 0.242 
• R-Value Work: 0.191 
• R-Value Observed: 0.193 

Literature

A widespread family of bacterial cell wall assembly proteins.

Kawai, Y., Marles-Wright, J., Cleverley, R.M., Emmins, R., Ishikawa, S., Kuwano, M., Heinz, N., Bui, N.K., Hoyland, C.N., Ogasawara, N., Lewis, R.J., Vollmer, W., Daniel, R.A., Errington, J.

(2011) EMBO J 30: 4931-4941

• PubMed: 21964069 
• DOI: https://doi.org/10.1038/emboj.2011.358
• Primary Citation of Related Structures:  
  2XXP, 2XXQ, 3TEL, 3TEP, 3TFL


• PubMed Abstract: 
  

  Teichoic acids and acidic capsular polysaccharides are major anionic cell wall polymers (APs) in many bacteria, with various critical cell functions, including maintenance of cell shape and structural integrity, charge and cation homeostasis, and multiple aspects of pathogenesis. We have identified the widespread LytR-Cps2A-Psr (LCP) protein family, of previously unknown function, as novel enzymes required for AP synthesis. Structural and biochemical analysis of several LCP proteins suggest that they carry out the final step of transferring APs from their lipid-linked precursor to cell wall peptidoglycan (PG). In Bacillus subtilis, LCP proteins are found in association with the MreB cytoskeleton, suggesting that MreB proteins coordinate the insertion of the major polymers, PG and AP, into the cell wall.

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Organizational Affiliation: 

Centre for Bacterial Cell Biology, Medical School, Newcastle University, Newcastle upon Tyne, UK.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 45.09 kDa 
• Atom Count: 3,107 
• Modelled Residue Count: 371 
• Deposited Residue Count: 398 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CPS2A, Integral membrane regulatory protein Wzg	A	398	Streptococcus pneumoniae	Mutation(s): 0  Gene Names: SPC02_0004, wzg
UniProt
Find proteins for Q4K376 (Streptococcus pneumoniae) Explore Q4K376  Go to UniProtKB:  Q4K376

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZTP	C [auth A]	(2Z,6Z,10Z,14Z,18Z,22Z,26Z)-3,7,11,15,19,23,27,31-octamethyldotriaconta-2,6,10,14,18,22,26,30-octaen-1-yl trihydrogen diphosphate C40 H68 O7 P2 IKKLDISSULFFQO-DLTKSLTJSA-N
EDO	B [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 0.242 
• R-Value Work: 0.191 
• R-Value Observed: 0.193 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 73.348	α = 90
b = 73.348	β = 90
c = 163.869	γ = 90

Software Package:

Software Name	Purpose
GDA	data collection
PHASER	phasing
REFMAC	refinement
XDS	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-10-12 
Deposition Author(s): Kawai, Y., Marles-Wright, J., Cleverley, R.M., Emmins, R., Ishikawa, S., Kuwano, M., Heinz, N., Khai Bui, N., Hoyland, C.N., Ogasawara, N., Lewis, R.J., Vollmer, W., Daniel, R.A., Errington, J.

Revision History  

• Version 1.0: 2011-10-12
  Type: Initial release
  
• Version 1.1: 2013-01-09
  Changes: Database references
• Version 1.2: 2024-02-28
  Changes: Data collection, Database references, Derived calculations