2I80

Allosteric inhibition of Staphylococcus aureus D-alanine:D-alanine ligase revealed by crystallographic studies

Structural Biology Knowledgebase: 2I80 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.19 Å
  • R-Value Free: 0.251
  • R-Value Work: 0.188

Literature

Macromolecules
Sequence Display for 2I80

Classification: LIGASE

Total Structure Weight: 82152.22

Macromolecule Entities
Molecule Chains Length Organism Details
D-alanine-D-alanine ligase A, B 360 Staphylococcus aureus EC#: 6.3.2.4 IUBMB
Gene Name(s): ddl SACOL2074
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
G1L
Query on G1L

A, B 3-CHLORO-2,2-DIMETHYL-N-[4-(TRIFLUOROMETHYL)PHENYL]PROPANAMIDE
C12 H13 Cl F3 N O
QCQZFHOGRCQNIH-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
G1L N/A in BindingDB
Ki: 4000 nM  BindingMOAD
Ki: 4000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.19 Å
  • R-Value Free: 0.251
  • R-Value Work: 0.188
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 67.73 α = 90.00
b = 66.08 β = 96.57
c = 78.79 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-08-31
  • Released Date: 2006-09-26
  • Deposition author(s): Liu, S., Chang, J.S., Herberg, J.T., Horng, M.-M., Tomich, P.K., Lin, A.H., Marotti, K.R.

Revision History

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