2AGS

Trypanosoma rangeli Sialidase in Complex with 2-Keto-3-deoxy-D-glycero-D-galacto-2,3-difluoro-nononic acid (2,3-difluoro-KDN)

Structural Biology Knowledgebase: 2AGS SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.189
  • R-Value Work: 0.154

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2AGS

Classification: HYDROLASE

Total Structure Weight: 71668.19

Macromolecule Entities
Molecule Chains Length Organism Details
sialidase A 652 Trypanosoma rangeli EC#: 3.2.1.18 IUBMB
Fragment: residues 23-660
Mutation: T50I, G186A, F372L, I606V
Gene Name(s):

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

A 3-deoxy-3-fluoro-D-erythro-alpha-L-manno- non-2-ulopyranosonic acid
C9 H15 F O9
KOWJBKIDVGQXJZ-QMFVTVPYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.189
  • R-Value Work: 0.154
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 73.67 α = 90.00
b = 95.57 β = 90.00
c = 105.82 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-07-27
  • Released Date: 2005-11-22
  • Deposition author(s): Amaya, M.F., Alzari, P.M., Buschiazzo, A.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4