1QUP

CRYSTAL STRUCTURE OF THE COPPER CHAPERONE FOR SUPEROXIDE DISMUTASE

• PDB DOI: https://doi.org/10.2210/pdb1QUP/pdb

• Classification: CHAPERONE
• Organism(s): Saccharomyces cerevisiae
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 1999-07-01 Released: 1999-12-10 
• Deposition Author(s): Lamb, A.L., Wernimont, A.K., Pufahl, R.A., O'Halloran, T.V., Rosenzweig, A.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.238 
• R-Value Work: 0.213 
• R-Value Observed: 0.213 

Literature

Crystal structure of the copper chaperone for superoxide dismutase.

Lamb, A.L., Wernimont, A.K., Pufahl, R.A., Culotta, V.C., O'Halloran, T.V., Rosenzweig, A.C.

(1999) Nat Struct Biol 6: 724-729

• PubMed: 10426947 
• DOI: https://doi.org/10.1038/11489
• Primary Citation of Related Structures:  
  1QUP


• PubMed Abstract: 
  

  Cellular systems for handling transition metal ions have been identified, but little is known about the structure and function of the specific trafficking proteins. The 1.8 A resolution structure of the yeast copper chaperone for superoxide dismutase (yCCS) reveals a protein composed of two domains. The N-terminal domain is very similar to the metallochaperone protein Atx1 and is likely to play a role in copper delivery and/or uptake. The second domain resembles the physiological target of yCCS, superoxide dismutase I (SOD1), in overall fold, but lacks all of the structural elements involved in catalysis. In the crystal, two SOD1-like domains interact to form a dimer. The subunit interface is remarkably similar to that in SOD1, suggesting a structural basis for target recognition by this metallochaperone.

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Organizational Affiliation: 

[1] Department of Biochemistry, Molecular Biology, and Cell Biology, Northwestern University, Evanston, Illinois, 60208, USA.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 49 kDa 
• Atom Count: 3,746 
• Modelled Residue Count: 440 
• Deposited Residue Count: 444 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SUPEROXIDE DISMUTASE 1 COPPER CHAPERONE	A, B	222	Saccharomyces cerevisiae	Mutation(s): 2
UniProt
Find proteins for P40202 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P40202  Go to UniProtKB:  P40202

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.238 
• R-Value Work: 0.213 
• R-Value Observed: 0.213 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 87.45	α = 90
b = 111.45	β = 90
c = 52.8	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MLPHARE	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-12-10 
Deposition Author(s): Lamb, A.L., Wernimont, A.K., Pufahl, R.A., O'Halloran, T.V., Rosenzweig, A.C.

Revision History  

• Version 1.0: 1999-12-10
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-06-27
  Changes: Data collection, Database references
• Version 1.4: 2024-10-09
  Changes: Data collection, Database references, Derived calculations, Structure summary