1MF4

Structure-based design of potent and selective inhibitors of phospholipase A2: Crystal structure of the complex formed between phosholipase A2 from Naja Naja sagittifera and a designed peptide inhibitor at 1.9 A resolution

Structural Biology Knowledgebase: 1MF4 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.239
  • R-Value Work: 0.182

Literature

Macromolecules
Sequence Display for 1MF4

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 13748.31

Macromolecule Entities
Molecule Chains Length Organism Details
Phospholipase A2 A 119 Naja sagittifera EC#: 3.1.1.4 IUBMB
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
VAL-ALA-PHE-ARG-SER B 5 synthetic

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

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.239
  • R-Value Work: 0.182
  • Space Group: P 41

Unit Cell:

Length (Å) Angle (°)
a = 42.78 α = 90.00
b = 42.78 β = 90.00
c = 65.87 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-08-09
  • Released Date: 2003-09-30
  • Deposition author(s): Singh, R.K., Vikram, P., Paramsivam, M., Jabeen, T., Sharma, S., Makker, J., Dey, S., Kaur, P., Srinivasan, A., Singh, T.P.

Revision History

  • 2011-07-13
    Type: Linkage | Details: Linkage
  • 2011-07-13
    Type: Sequence database correspondence | Details: Sequence database correspondence
  • 2011-07-13
    Type: Polymer description | Details: Changed inhibitor presentation or chemistry
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Atom nomenclature | Details: Atom nomenclature
  • 2011-07-13
    Type: Binding sites and description | Details: Binding sites and description
  • 2011-07-13
    Type: Non-polymer description | Details: Non-polymer description
  • 2011-07-13
    Type: Function and keywords | Details: Function and keywords