5B49

Crystal structure of LpxH with manganese from Pseudomonas aeruginosa


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.177
  • R-Value Work: 0.152

Literature

Macromolecules
Sequence Display for 5B49

Classification: HYDROLASE

Total Structure Weight: 59261.63

Macromolecule Entities
Molecule Chains Length Organism Details
UDP-2,3-diacylglucosamine hydrolase A, B 248 Pseudomonas aeruginosa EC#: 3.6.1.54 IUBMB
Gene Name(s): lpxH PA1792
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: mpstruc | Group: MONOTOPIC MEMBRANE PROTEINS

Subgroup Name: Hydrolases

Protein Name: LpxH pyrophosphohydrase with bound lipid X & Mn2+


Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
LP5
Query on LP5

A, B (R)-((2R,3S,4R,5R,6R)-3-HYDROXY-2-(HYDROXYMETHYL)- 5-((R)-3-HYDROXYTETRADECANAMIDO)-6-(PHOSPHONOOXY)TETRAHYDRO- 2H-PYRAN-4-YL) 3-HYDROXYTETRADECANOATE
C34 H66 N O12 P
HEHQDWUWJVPREQ-XQJZMFRCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

A, B MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.177
  • R-Value Work: 0.152
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 48.94 α = 90.00
b = 108.86 β = 92.68
c = 51.56 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-04-03
  • Released Date: 2016-09-28
  • Deposition author(s): Okada, C., Wakabayashi, H., Yao, M., Tanaka, I.

Revision History

No revisions since initial release