5KKY

Structure of Streptococcus pneumonia NanA bound with inhibitor 9N3Neu5Ac2en


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.393 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.154 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Synthesis of selective inhibitors against S. pneumoniae and V. cholerae sialidases

Slack, T.J.Zhao, G.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Sialidase A
A, B
496Streptococcus pneumoniaeMutation(s): 0 
Gene Names: nanA
EC: 3.2.1.18
Find proteins for P62575 (Streptococcus pneumoniae)
Go to UniProtKB:  P62575
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CL
Query on CL

Download SDF File 
Download CCD File 
A, B
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
6UD
Query on 6UD

Download SDF File 
Download CCD File 
A, B
(2~{R},3~{R},4~{S})-3-acetamido-2-[(1~{R},2~{R})-3-(2-azanylhydrazinyl)-1,2-bis(oxidanyl)propyl]-4-oxidanyl-3,4-dihydro-2~{H}-pyran-6-carboxylic acid
C11 H20 N4 O7
FQISBZMFUOAQIB-UFGQHTETSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.393 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.154 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 75.325α = 90.00
b = 77.054β = 98.52
c = 85.810γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
HKL-2000data reduction
HKL-2000data scaling
PHENIXrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2016-06-23 
  • Released Date: 2017-06-28 
  • Deposition Author(s): Shi, D., Zhao, G.

Funding OrganizationLocationGrant Number
National Institutes of Health/Eunice Kennedy Shriver National Institute of Child Health & Human DevelopmentUnited StatesR01HD065122

Revision History 

  • Version 1.0: 2017-06-28
    Type: Initial release
  • Version 1.1: 2017-09-27
    Type: Author supporting evidence