Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 32034.19 
• Atom Count: 2197 
• Residue Count: 306 
• Unique protein chains: 1

4FF9

Crystal Structure of cysteinylated WT SOD1.

• DOI: 10.2210/pdb4FF9/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Expression System: Saccharomyces cerevisiae


• Deposited: 2012-05-31 Released: 2013-09-04 
• Deposition Author(s): Auclair, J.R., Brodkin, H.R., D'Aquino, J.A., Ringe, D., Petsko, G.A., Agar, J.N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.5003 Å
• R-Value Free: 0.335 
• R-Value Work: 0.276 

Literature

Structural consequences of cysteinylation of cu/zn-superoxide dismutase.

Auclair, J.R., Brodkin, H.R., D'Aquino, J.A., Petsko, G.A., Ringe, D., Agar, J.N.

(2013) Biochemistry 52: 6145-6150

• PubMed: 23919400 
• DOI: 10.1021/bi400613h


• PubMed Abstract: 
  

The metalloenzyme Cu/Zn-superoxide dismutase (SOD1) catalyzes the reduction of superoxide anions into molecular oxygen and hydrogen peroxide. Hydrogen peroxide can oxidize SOD1, resulting in aberrant protein conformational changes, disruption of SOD1 function, and DNA damage. Cells may have evolved mechanisms of regulation that prevent such oxidation. We observed that cysteinylation of cysteine 111 (Cys111) of SOD1 prevents oxidation by peroxide (DOI 10.1021/bi4006122 ). In this article, we characterize cysteinylated SOD1 using differential scanning fluorometry and X-ray crystallography. The stoichiometry of binding was one cysteine per SOD1 dimer, and there does not appear to be free volume for a second cysteine without disrupting the dimer interface. Much of the three-dimensional structure of SOD1 is unaffected by cysteinylation. However, local conformational changes are observed in the cysteinylated monomer that include changes in conformation of the electrostatic loop (loop VII; residues 133-144) and the dimer interface (loop VI; residues 102-115). In addition, our data shows how cysteinylation precludes oxidation of cysteine 111 and suggests possible cross-talk between the dimer interface and the electrostatic loop.

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Organizational Affiliation: 

Departments of Biochemistry and Chemistry and Rosenstiel Basic Medical Sciences Research Center, Brandeis University , Waltham, Massachusetts 02454, United States.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Superoxide dismutase [Cu-Zn]	A, B	153	Homo sapiens	Mutation(s): 0  Gene Names: SOD1 EC: 1.15.1.1
Find proteins for P00441 (Homo sapiens) Go to Gene View: SOD1 Go to UniProtKB:  P00441

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ZN	A, B	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CU	A, B	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N
CYS	A	CYSTEINE C3 H7 N O2 S XUJNEKJLAYXESH-REOHCLBHSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.5003 Å
• R-Value Free: 0.335 
• R-Value Work: 0.276 
• Space Group: P 6₃

Unit Cell:

Length (Å)	Angle (°)
a = 113.050	α = 90.00
b = 113.050	β = 90.00
c = 70.590	γ = 120.00

Software Package:

Software Name	Purpose
PHENIX	refinement
PHASER	phasing
HKL-2000	data scaling
HKL-2000	data reduction
PROTEUM PLUS	data collection

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-05-31 
• Released Date: 2013-09-04 
• Deposition Author(s): Auclair, J.R., Brodkin, H.R., D'Aquino, J.A., Ringe, D., Petsko, G.A., Agar, J.N.

Revision History 

• Version 1.0: 2013-09-04
  Type: Initial release
• Version 1.1: 2013-12-25
  Type: Database references