1EGM

CRYSTAL STRUCTURE OF DIOL DEHYDRATASE-CYANOCOBALAMIN COMPLEX AT 100K.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.182

Literature

Macromolecules
Sequence Display for 1EGM

Classification: LYASE

Total Structure Weight: 210439.95

Macromolecule Entities
Molecule Chains Length Organism Details
PROPANEDIOL DEHYDRATASE A, L 554 Klebsiella oxytoca EC#: 4.2.1.28 IUBMB
Fragment: ALPHA CHAIN
Gene Name(s): pddA pduC AB185_12495 SK88_04876 SK91_02751
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PROPANEDIOL DEHYDRATASE B, E 224 Klebsiella oxytoca EC#: 4.2.1.28 IUBMB
Fragment: BETA CHAIN
Gene Name(s): pddB
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PROPANEDIOL DEHYDRATASE G, M 173 Klebsiella oxytoca EC#: 4.2.1.28 IUBMB
Fragment: GAMMA CHAIN
Gene Name(s): pddC pduE AB185_12485 KOJKO3_c4550 SK91_02753
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, L CO-CYANOCOBALAMIN
C63 H88 Co N14 O14 P
OEEKSCBDGPRZJZ-BYLSPCLQSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PGO
Query on PGO

A, L S-1,2-PROPANEDIOL
C3 H8 O2
DNIAPMSPPWPWGF-VKHMYHEASA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

A, L POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.182
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 74.00 α = 90.00
b = 121.60 β = 90.00
c = 207.70 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-02-15
  • Released Date: 2000-09-20
  • Deposition author(s): Masuda, J., Shibata, N., Toraya, T., Morimoto, Y., Yasuoka, N.

Revision History

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