4FPF

Crystal structure of the NanB sialidase from streptococcus pneumoniae in complex with 2-[(3-Chlorobenzyl)ammonio]ethanesulfonate

Structural Biology Knowledgebase: 4FPF SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.23 Å
  • R-Value Free: 0.225
  • R-Value Work: 0.174

Literature

Macromolecules
Sequence Display for 4FPF

Classification: HYDROLASE / INHIBITOR

Total Structure Weight: 78187.53

Macromolecule Entities
Molecule Chains Length Organism Details
Sialidase B A 697 Streptococcus pneumoniae EC#: 3.2.1.18 IUBMB
Gene Name(s): nanB SP_1687
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
JKK
Query on JKK

A 2-[(3-chlorobenzyl)amino]ethanesulfonic acid
C9 H12 Cl N O3 S
YIFAENIIGITJQU-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DMS
Query on DMS

A DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
JKK N/A in BindingDB
IC50: 38900 nM  BindingMOAD
IC50: 38900 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.23 Å
  • R-Value Free: 0.225
  • R-Value Work: 0.174
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 76.38 α = 90.00
b = 82.58 β = 90.00
c = 116.69 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-06-22
  • Released Date: 2012-10-31
  • Deposition author(s): Brear, P.

Revision History

  • 2012-11-14
    Type: Citation | Details: Citation update