1DGE

AN ALKALI METAL ION SIZE-DEPENDENT SWITCH IN THE ACTIVE SITE STRUCTURE OF DIALKYLGLYCINE DECARBOXYLASE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Observed: 0.195

Literature

Macromolecules
Sequence Display for 1DGE

Classification: LYASE

Total Structure Weight: 46987.46

Macromolecule Entities
Molecule Chains Length Organism Details
DIALKYLGLYCINE DECARBOXYLASE A 432 Burkholderia cepacia EC#: 4.1.1.64 IUBMB
Mutation: Q15H
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
PLP
Query on PLP

A PYRIDOXAL-5'-PHOSPHATE
VITAMIN B6 Phosphate (Synonym)
C8 H10 N O6 P
NGVDGCNFYWLIFO-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MES
Query on MES

A 2-(N-MORPHOLINO)-ETHANESULFONIC ACID
C6 H13 N O4 S
SXGZJKUKBWWHRA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
RB
Query on RB

A RUBIDIUM ION
Rb
NCCSSGKUIKYAJD-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Observed: 0.195
  • Space Group: P 64 2 2

Unit Cell:

Length (Å) Angle (°)
a = 153.50 α = 90.00
b = 153.50 β = 90.00
c = 86.60 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1994-06-29
  • Released Date: 1994-09-30
  • Deposition author(s): Hohenester, E., Jansonius, J.N.

Revision History

  • Version 1_0: 1994-09-30

    Type: Initial release

  • Version 1_1: 2008-03-03

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Derived calculations, Version format compliance

  • Version 1_3: 2017-11-29

    Type: Advisory, Derived calculations, Other