Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 27.96 kDa 
• Atom Count: 2028 
• Modelled Residue Count: 274 
• Deposited Residue Count: 274 
• Unique protein chains: 1

1AF4

CRYSTAL STRUCTURE OF SUBTILISIN CARLSBERG IN ANHYDROUS DIOXANE

• PDB DOI: 10.2210/pdb1AF4/pdb

• Classification: SERINE PROTEASE
• Organism(s): Bacillus licheniformis
• Mutation(s): No 


• Deposited: 1997-03-21 Released: 1997-06-16 
• Deposition Author(s): Schmitke, J.L., Stern, L.J., Klibanov, A.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.248 
• R-Value Work: 0.161 
• R-Value Observed: 0.161 

Literature

The crystal structure of subtilisin Carlsberg in anhydrous dioxane and its comparison with those in water and acetonitrile.

Schmitke, J.L., Stern, L.J., Klibanov, A.M.

(1997) Proc Natl Acad Sci U S A 94: 4250-4255

• PubMed: 9113975 
• DOI: 10.1073/pnas.94.9.4250
• Primary Citation of Related Structures:  
  1AF4


• PubMed Abstract: 
  

The x-ray crystal structure of the serine protease subtilisin Carlsberg in anhydrous dioxane has been determined to 2.6-A resolution. The enzyme structure is found to be nearly indistinguishable from the structures previously determined in water and acetonitrile. Small changes in the side-chain conformations between the dioxane and water structures are of the same magnitude as those observed between two structures in different aqueous systems. Seven enzyme-bound dioxane molecules have been detected, each potentially forming at least one hydrogen bond with a subtilisin hydrogen-bond donor or bound water. Two of the bound dioxane molecules are in the active-site region, one in the P2 and another bridging the P1' and P3' pockets. The other five dioxane molecules are located on the surface of subtilisin at interprotein crystal contacts. The locations of the bound solvent in the dioxane structure are distinct from those in the structures in acetonitrile and in water.

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Organizational Affiliation: 

Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SUBTILISIN CARLSBERG	A	274	Bacillus licheniformis	Mutation(s): 0  Gene Names: subC, apr EC: 3.4.21.62
UniProt
Find proteins for P00780 (Bacillus licheniformis) Explore P00780  Go to UniProtKB:  P00780

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DIO	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A]	1,4-DIETHYLENE DIOXIDE C4 H8 O2 RYHBNJHYFVUHQT-UHFFFAOYSA-N
CA	B [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.248 
• R-Value Work: 0.161 
• R-Value Observed: 0.161 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77	α = 90
b = 55.2	β = 90
c = 53.85	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1997-03-21 
• Released Date: 1997-06-16 
Deposition Author(s): Schmitke, J.L., Stern, L.J., Klibanov, A.M.

Revision History  

• Version 1.0: 1997-06-16
  Type: Initial release
  
• Version 1.1: 2008-03-03
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-11-29
  Changes: Advisory, Derived calculations, Other