1SCD | pdb_00001scd

X-RAY CRYSTAL STRUCTURE OF CROSS-LINKED SUBTILISM CARLSBERG IN WATER VS. ACETONITRILE

• PDB DOI: https://doi.org/10.2210/pdb1SCD/pdb

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


• Deposited: 1993-08-23 Released: 1994-01-31 
• Deposition Author(s): Fitzpatrick, P.A., Ringe, D., Klibanov, A.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Observed: 
  0.146 (Depositor) 

Literature

X-ray crystal structure of cross-linked subtilisin Carlsberg in water vs. acetonitrile.

Fitzpatrick, P.A., Ringe, D., Klibanov, A.M.

(1994) Biochem Biophys Res Commun 198: 675-681

• PubMed: 8297378 
• DOI: https://doi.org/10.1006/bbrc.1994.1098
• Primary Citation of Related Structures:  
  1SCD


• PubMed Abstract: 
  

  The crystal structure of subtilisin Carlsberg lightly cross-linked with glutaraldehyde was solved in aqueous solution by X-ray crystallography at 2.3 A resolution. It was found to be virtually identical to the recently determined (Fitzpatrick, P.A., Steinmetz, A.C.U., Ringe, D.A. & Klibanov, A.M. (1993) Proc. Natl. Acad. Sci. USA 90, 8653) structure of the cross-linked enzyme in anhydrous acetonitrile. The latter structure was found to be significantly more rigid than in water, as reflected by their average B factors. The numbers of subtilisin-bound water molecules in the two structures are similar (114 and 99 in water and in acetonitrile, respectively), but the locations of some half of these bound waters are distinct.

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Organizational Affiliation: 
• Department of Chemistry, Massachusetts Institute of Technology, Cambridge 02139.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 27.39 kDa 
• Atom Count: 2,036 
• Modeled Residue Count: 274 
• Deposited Residue Count: 274 
• Unique protein chains: 1

Macromolecules

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

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	B [auth A], C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Observed: 0.146 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77.2	α = 90
b = 55.8	β = 90
c = 53.7	γ = 90

Software Package:

Software Name	Purpose
PROLSQ	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 1994-01-31 
Deposition Author(s): Fitzpatrick, P.A., Ringe, D., Klibanov, A.M.

Revision History  

• Version 1.0: 1994-01-31
  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: Derived calculations, Other
• Version 1.4: 2024-02-14
  Changes: Data collection, Database references, Derived calculations