4P1X

Crystal structure of staphylococcal LUK prepore

Structural Biology Knowledgebase: 4P1X SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.182

Literature

Macromolecules
Sequence Display for 4P1X

Classification: TOXIN

Total Structure Weight: 276979.03

Macromolecule Entities
Molecule Chains Length Organism Details
Gamma-hemolysin component C B, D, F, H 296 Staphylococcus aureus Gene Name(s): hlgC SAV2420
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Gamma-hemolysin component B A, C, E, G 309 Staphylococcus aureus Mutation: C256R
Gene Name(s): hlgB SAV2421
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: γ-hemolysin composed of LukF and Hlg2


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

A, C, E, G (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.182
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 193.31 α = 90.00
b = 193.16 β = 118.94
c = 116.38 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-02-28
  • Released Date: 2014-10-01
  • Deposition author(s): Yamashita, D., Tanaka, Y., Tanaka, I., Yao, M.

Revision History

  • 2014-10-15
    Type: Citation | Details: Citation