4RH6 | pdb_00004rh6

2.9 Angstrom Crystal Structure of Putative Exotoxin 3 from Staphylococcus aureus.

• PDB DOI: https://doi.org/10.2210/pdb4RH6/pdb

• Classification: TOXIN
• Organism(s): Staphylococcus aureus subsp. aureus COL
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-10-01 Released: 2014-10-29 
• Deposition Author(s): Minasov, G., Nocadello, S., Shuvalova, L., Filippova, E.V., Halavaty, A., Dubrovska, I., Bagnoli, F., Falugi, F., Bottomley, M., Grandi, G., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 
  0.283 (Depositor), 0.279 (DCC) 
• R-Value Work: 
  0.226 (Depositor), 0.223 (DCC) 
• R-Value Observed: 
  0.231 (Depositor) 

Starting Model: experimental

Literature

2.9 Angstrom Crystal Structure of Putative Exotoxin 3 from Staphylococcus aureus.

Minasov, G., Nocadello, S., Shuvalova, L., Filippova, E.V., Halavaty, A., Dubrovska, I., Bagnoli, F., Falugi, F., Bottomley, M., Grandi, G., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 73.59 kDa 
• Atom Count: 4,739 
• Modeled Residue Count: 565 
• Deposited Residue Count: 633 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Exotoxin 3, putative	A, B, C	211	Staphylococcus aureus subsp. aureus COL	Mutation(s): 0  Gene Names: SACOL0468
UniProt
Find proteins for A0A0H2WXS6 (Staphylococcus aureus (strain COL)) Explore A0A0H2WXS6  Go to UniProtKB:  A0A0H2WXS6

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	D [auth C], E [auth C], F [auth C]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free:  0.283 (Depositor), 0.279 (DCC) 
• R-Value Work:  0.226 (Depositor), 0.223 (DCC) 
• R-Value Observed: 0.231 (Depositor) 

Diffraction Data: https://doi.org/10.18430/m34rh6

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.427	α = 90
b = 90.623	β = 90
c = 159.711	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
PHASER	phasing
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-10-29 
Deposition Author(s): Minasov, G., Nocadello, S., Shuvalova, L., Filippova, E.V., Halavaty, A., Dubrovska, I., Bagnoli, F., Falugi, F., Bottomley, M., Grandi, G., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2014-10-29
  Type: Initial release
  
• Version 1.1: 2017-11-22
  Changes: Refinement description
• Version 1.2: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description