2DLN

VANCOMYCIN RESISTANCE: STRUCTURE OF D-ALANINE:D-ALANINE LIGASE AT 2.3 ANGSTROMS RESOLUTION

Structural Biology Knowledgebase: 2DLN SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Observed: 0.172

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2DLN

Classification: LIGASE(PEPTIDOGLYCAN SYNTHESIS)

Total Structure Weight: 33618.79

Macromolecule Entities
Molecule Chains Length Organism Details
D-ALANINE--D-ALANINE LIGASE A 306 Escherichia coli EC#: 6.3.2.4 IUBMB
Gene Name(s): ddlB ddl b0092 JW0090
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PHY
Query on PHY

A 1(S)-AMINOETHYL-(2-CARBOXYPROPYL)PHOSPHORYL- PHOSPHINIC ACID
C6 H15 N O7 P2
BAIYWTZQRMCJBV-DKDXWZAISA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Observed: 0.172
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 99.30 α = 90.00
b = 51.40 β = 90.00
c = 51.20 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1994-07-18
  • Released Date: 1995-11-01
  • Deposition author(s): Knox, J.R., Moews, P.C., Fan, C.

Revision History

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