3P3C

Crystal Structure of the Aquifex aeolicus LpxC/LPC-009 complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.161
  • R-Value Work: 0.152

Literature

Macromolecules
Sequence Display for 3P3C

Classification: HYDROLASE

Total Structure Weight: 31844.57

Macromolecule Entities
Molecule Chains Length Organism Details
UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase A 274 Aquifex aeolicus EC#: 3.5.1 IUBMB
Fragment: UNP residues 2-275
Mutation: C181A
Gene Name(s): lpxC envA aq_1772
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
3P3
Query on 3P3

A N-[(1S,2R)-2-hydroxy-1-(hydroxycarbamoyl)propyl]- 4-(4-phenylbuta-1,3-diyn-1-yl)benzamide
C21 H18 N2 O4
VUYMSCCEGRLBAF-BEFAXECRSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
3P3 Kd: 8 nM (99) BindingDB
Ki: 1 nM (99) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.161
  • R-Value Work: 0.152
  • Space Group: P 61

Unit Cell:

Length (Å) Angle (°)
a = 65.60 α = 90.00
b = 65.60 β = 90.00
c = 132.26 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-10-04
  • Released Date: 2011-01-05
  • Deposition author(s): Lee, C.-J, Zhou, P.

Revision History

  • 2011-07-13
    Type: Version format compliance