3NSJ

The X-ray crystal structure of lymphocyte perforin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.215
  • R-Value Work: 0.196

Literature

Macromolecules
Sequence Display for 3NSJ

Classification: IMMUNE SYSTEM

Total Structure Weight: 61955.14

Macromolecule Entities
Molecule Chains Length Organism Details
Perforin-1 A 540 Mus musculus Mutation: R213E
Gene Name(s): Prf1 Pfp
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: mpstruc | Group: BETA-BARREL

Subgroup Name: Adventitious Membrane Proteins: Beta-sheet Pore-forming Toxins/Attack Complexes

Protein Name: Lymphocyte preforin monomer


Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAG
Query on NAG

A N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IOD
Query on IOD

A IODIDE ION
I
XMBWDFGMSWQBCA-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

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

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

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

Unit Cell:

Length (Å) Angle (°)
a = 78.64 α = 90.00
b = 109.80 β = 90.00
c = 141.03 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-07-01
  • Released Date: 2010-11-03
  • Deposition author(s): Law, R.H., Whisstock, J.C., Caradoc-Davies, T.T.

Revision History

  • Version 1_0: 2010-11-03

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Version format compliance