1KD0

Crystal Structure of beta-methylaspartase from Clostridium tetanomorphum. Apo-structure.

Structural Biology Knowledgebase: 1KD0 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.175

Literature

Macromolecules
Sequence Display for 1KD0

Classification: LYASE

Total Structure Weight: 92903.81

Macromolecule Entities
Molecule Chains Length Organism Details
beta-methylaspartase A, B 413 Clostridium tetanomorphum EC#: 4.3.1.2 IUBMB
Mutation: M1M, M112M, M119M, M150M, M184M, M254M, M276M, M285M, M288M, M327M, M346M, M353M, M376M, M389M, M395M, M396M, M402M
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
EDO
Query on EDO

A, B 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.175
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 67.28 α = 90.00
b = 109.26 β = 90.00
c = 108.99 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-11-12
  • Released Date: 2001-12-19
  • Deposition author(s): Asuncion, M., Blankenfeldt, W., Barlow, J.N., Gani, D., Naismith, J.H.

Revision History

  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Refinement description | Details: Fixed TLS group
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4