Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Dihedral - D2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content

• Total Structure Weight: 89.09 kDa 
• Atom Count: 6933 
• Residue Count: 788 
• Unique protein chains: 1

1PL4

Crystal Structure of human MnSOD Y166F mutant

• DOI: 10.2210/pdb1PL4/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2003-06-06 Released: 2003-12-16 
• Deposition Author(s): Fan, L., Tainer, J.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.47 Å
• R-Value Free: 0.237 
• R-Value Work: 0.185 
• R-Value Observed: 0.200 

Literature

Amino acid substitution at the dimeric interface of human manganese superoxide dismutase

Hearn, A.S., Fan, L., Lepock, J.R., Luba, J.P., Greenleaf, W.B., Cabelli, D.E., Tainer, J.A., Nick, H.S., Silverman, D.N.

(2004) J Biol Chem 279: 5861-5866

• PubMed: 14638684 
• DOI: 10.1074/jbc.M311310200
• Primary Citation of Related Structures:  
  1PL4, 1PM9


• PubMed Abstract: 
  

The side chains of His30 and Tyr166 from adjacent subunits in the homotetramer human manganese superoxide dismutase (Mn-SOD) form a hydrogen bond across the dimer interface and participate in a hydrogen-bonded network that extends to the active site. Compared with wild-type Mn-SOD, the site-specific mutants H30N, Y166F, and the corresponding double mutant showed 10-fold decreases in steady-state constants for catalysis measured by pulse radiolysis. The observation of no additional effect upon the second mutation is an example of cooperatively interacting residues. A similar effect was observed in the thermal stability of these enzymes; the double mutant did not reduce the major unfolding transition to an extent greater than either single mutant. The crystal structures of these site-specific mutants each have unique conformational changes, but each has lost the hydrogen bond across the dimer interface, which results in a decrease in catalysis. These same mutations caused an enhancement of the dissociation of the product-inhibited complex. That is, His30 and Tyr166 in wild-type Mn-SOD act to prolong the lifetime of the inhibited complex. This would have a selective advantage in blocking a cellular overproduction of toxic H2O2.

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Organizational Affiliation: 

Departments of Pharmacology and Neuroscience, University of Florida, Gainesville, Florida 32610-0267, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Superoxide dismutase [Mn], mitochondrial	A, B, C, D	198	Homo sapiens	Mutation(s): 1  Gene Names: SOD2 EC: 1.15.1.1
Find proteins for P04179 (Homo sapiens) Explore P04179  Go to UniProtKB:  P04179
NIH Common Fund Data Resources
PHAROS:  P04179 GTEx:  ENSG00000112096

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MN	A, B, C, D	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.47 Å
• R-Value Free: 0.237 
• R-Value Work: 0.185 
• R-Value Observed: 0.200 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 73.689	α = 90
b = 77.711	β = 90
c = 135.795	γ = 90

Software Package:

Software Name	Purpose
SHELXL	refinement
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2003-06-06 
• Released Date: 2003-12-16 
Deposition Author(s): Fan, L., Tainer, J.A.

Revision History 

• Version 1.0: 2003-12-16
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-11
  Changes: Refinement description