5P2P

X-RAY STRUCTURE OF PHOSPHOLIPASE A2 COMPLEXED WITH A SUBSTRATE-DERIVED INHIBITOR

Structural Biology Knowledgebase: 5P2P SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Observed: 0.189

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 5P2P

Classification: HYDROLASE(CARBOXYLIC ESTER)

Total Structure Weight: 27829.45

Macromolecule Entities
Molecule Chains Length Organism Details
PHOSPHOLIPASE A2 A, B 119 Sus scrofa EC#: 3.1.1.4 IUBMB
Mutation: W3F, L31W, D59S, S60G, ΔK84, ΔF85, ΔL86, ΔV87, ΔD88, N67Y
Gene Name(s): PLA2G1B Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B PHOSPHONIC ACID 2-DODECANOYLAMINO-HEXYL ESTER PROPYL ESTER
C20 H42 N O6 P
SLLQAGCLXXPCKZ-LJQANCHMSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A, B CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Observed: 0.189
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 52.57 α = 90.00
b = 62.44 β = 90.00
c = 85.58 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1990-09-01
  • Released Date: 1991-10-15
  • Deposition author(s): Dijkstra, B.W., Thunnissen, M.M.G.M., Kalk, K.H., Drenth, J.

Revision History

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