1NG4

Structure of ThiO (glycine oxidase) from Bacillus subtilis

Structural Biology Knowledgebase: 1NG4 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.234
  • R-Value Work: 0.203

Literature

Macromolecules
Sequence Display for 1NG4

Classification: OXIDOREDUCTASE

Total Structure Weight: 88834.05

Macromolecule Entities
Molecule Chains Length Organism Details
Glycine oxidase A, B 390 Bacillus subtilis EC#: 1.4.3.19 IUBMB
Mutation: A288P
Gene Name(s): thiO goxB yjbR BSU11670
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

B PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PEO
Query on PEO

A, B HYDROGEN PEROXIDE
H2 O2
MHAJPDPJQMAIIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.234
  • R-Value Work: 0.203
  • Space Group: P 61 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 139.46 α = 90.00
b = 139.46 β = 90.00
c = 210.28 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-12-16
  • Released Date: 2003-04-08
  • Deposition author(s): Settembre, E.C., Dorrestein, P.C., Park, J., Augustine, A., Begley, T.P., Ealick, S.E.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values