4YZ3 | pdb_00004yz3

Crystal Structure of Streptococcus pneumoniae NanC, in complex with Oseltamivir.

• PDB DOI: https://doi.org/10.2210/pdb4YZ3/pdb

• Classification: HYDROLASE
• Organism(s): Streptococcus pneumoniae TIGR4
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2015-03-24 Released: 2016-04-20 
• Deposition Author(s): Lukacik, P., Owen, C.D., Potter, J.A., Taylor, G.L., Walsh, M.A.
• Funding Organization(s): Medical Research Council (United Kingdom)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.38 Å
• R-Value Free: 
  0.267 (Depositor), 0.271 (DCC) 
• R-Value Work: 
  0.216 (Depositor), 0.221 (DCC) 
• R-Value Observed: 
  0.218 (Depositor) 

Literature

Crystal Structure of Streptococcus pneumoniae NanC.

Owen, D.C., Lukacik, P., Potter, J.A., Walsh, M.A., Taylor, G.L.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 153.52 kDa 
• Atom Count: 11,154 
• Modeled Residue Count: 1,310 
• Deposited Residue Count: 1,354 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Neuraminidase	A, B	677	Streptococcus pneumoniae TIGR4	Mutation(s): 0  Gene Names: SP_1326 EC: 3.2.1.18
UniProt
Find proteins for A0A0H2UQE4 (Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)) Explore A0A0H2UQE4  Go to UniProtKB:  A0A0H2UQE4

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
G39	C [auth A], I [auth B]	(3R,4R,5S)-4-(acetylamino)-5-amino-3-(pentan-3-yloxy)cyclohex-1-ene-1-carboxylic acid C14 H24 N2 O4 NENPYTRHICXVCS-YNEHKIRRSA-N
SO4	D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], J [auth B], K [auth B], L [auth B], M [auth B], N [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.38 Å
• R-Value Free:  0.267 (Depositor), 0.271 (DCC) 
• R-Value Work:  0.216 (Depositor), 0.221 (DCC) 
• R-Value Observed: 0.218 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 73.51	α = 90
b = 136.03	β = 90
c = 150.17	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
xia2	data reduction

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2016-04-20 
Deposition Author(s): Lukacik, P., Owen, C.D., Potter, J.A., Taylor, G.L., Walsh, M.A.

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Funding Organization	Location	Grant Number
Medical Research Council (United Kingdom)	United Kingdom	--

Revision History  

• Version 1.0: 2016-04-20
  Type: Initial release
  
• Version 1.1: 2017-09-13
  Changes: Author supporting evidence, Data collection
• Version 1.2: 2024-05-08
  Changes: Data collection, Database references, Refinement description