3DBN

Crystal structure of the Streptoccocus suis serotype2 D-mannonate dehydratase in complex with its substrate

Structural Biology Knowledgebase: 3DBN SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.231

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3DBN

Classification: LYASE

Total Structure Weight: 86355.98

Macromolecule Entities
Molecule Chains Length Organism Details
Mannonate dehydratase A, B 386 Streptococcus suis EC#: 4.2.1.8 IUBMB
Gene Name(s): uxuA SSU05_1157

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CS2
Query on CS2

A D-MANNONIC ACID
D-MANNONATE (Synonym)
C6 H12 O7
RGHNJXZEOKUKBD-MBMOQRBOSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

A, B MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.231
  • Space Group: P 43 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 105.52 α = 90.00
b = 105.52 β = 90.00
c = 160.08 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-06-02
  • Released Date: 2009-06-23
  • Deposition author(s): Peng, H., Zhang, Q., Gao, F., Gao, G.F.

Revision History

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