1M0Q

Structure of Dialkylglycine Decarboxylase Complexed with S-1-aminoethanephosphonate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.240
  • R-Value Work: 0.191

Literature

Macromolecules
Sequence Display for 1M0Q

Classification: LYASE

Total Structure Weight: 46993.68

Macromolecule Entities
Molecule Chains Length Organism Details
2,2-Dialkylglycine Decarboxylase A 433 Burkholderia cepacia EC#: 4.1.1.64 IUBMB
Mutation: Q15H, G81E
Gene Name(s): dgdA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A (1S)-1-[((1E)-{3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN- 4-YL}METHYLENE)AMINO]ETHYLPHOSPHONIC ACID
C10 H16 N2 O8 P2
WCUQNAKNQCJAKL-MNOXCQKJSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

A POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
EPC N/A in BindingDB
Ki: 1100000 nM  BindingMOAD
Ki: 130000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.240
  • R-Value Work: 0.191
  • Space Group: P 64 2 2

Unit Cell:

Length (Å) Angle (°)
a = 150.81 α = 90.00
b = 150.81 β = 90.00
c = 85.05 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-06-13
  • Released Date: 2002-10-23
  • Deposition author(s): Liu, W., Rogers, C.J., Fisher, A.J., Toney, M.D.

Revision History

  • Version 1_0: 2002-10-23

    Type: Initial release

  • Version 1_1: 2008-04-28

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance