Biological Assembly 1  

 3D View: Structure

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure

Global Symmetry: Cyclic - C3  (3D View)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 2 generated by PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 35.00 kDa 
• Atom Count: 2561 
• Residue Count: 296 
• Unique protein chains: 1

1LCY

Crystal Structure of the Mitochondrial Serine Protease HtrA2

• DOI: 10.2210/pdb1LCY/pdb

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


• Deposited: 2002-04-07 Released: 2002-05-22 
• Deposition Author(s): Li, W., Srinivasula, S.M., Chai, J., Li, P., Wu, J.W., Zhang, Z., Alnemri, E.S., Shi, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.274 
• R-Value Work: 0.235 
• R-Value Observed: 0.237 

Literature

Structural insights into the pro-apoptotic function of mitochondrial serine protease HtrA2/Omi.

Li, W., Srinivasula, S.M., Chai, J., Li, P., Wu, J.W., Zhang, Z., Alnemri, E.S., Shi, Y.

(2002) Nat Struct Biol 9: 436-441

• PubMed: 11967569 
• DOI: 10.1038/nsb795
• Primary Citation of Related Structures:  
  1LCY


• PubMed Abstract: 
  

HtrA2/Omi, a mitochondrial serine protease in mammals, is important in programmed cell death. However, the underlining mechanism of HtrA2/Omi-mediated apoptosis remains unclear. Analogous to the bacterial homolog HtrA (DegP), the mature HtrA2 protein contains a central serine protease domain and a C-terminal PDZ domain. The 2.0 A crystal structure of HtrA2/Omi reveals the formation of a pyramid-shaped homotrimer mediated exclusively by the serine protease domains. The peptide-binding pocket of the PDZ domain is buried in the intimate interface between the PDZ and the protease domains. Mutational analysis reveals that the monomeric HtrA2/Omi mutants are unable to induce cell death and are deficient in protease activity. The PDZ domain modulates HtrA2/Omi-mediated cell death activity by regulating its serine protease activity. These structural and biochemical observations provide an important framework for deciphering the mechanisms of HtrA2/Omi-mediated apoptosis.

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Organizational Affiliation: 

Department of Molecular Biology, Lewis Thomas Laboratory, Princeton University, Princeton, New Jersey 08544, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HtrA2 serine protease	A	325	Homo sapiens	Mutation(s): 1  Gene Names: HTRA2, OMI, PRSS25 EC: 3.4.21 (PDB Primary Data), 3.4.21.108 (UniProt)
Find proteins for O43464 (Homo sapiens) Explore O43464  Go to UniProtKB:  O43464
NIH Common Fund Data Resources
PHAROS:  O43464 GTEx:  ENSG00000115317

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.274 
• R-Value Work: 0.235 
• R-Value Observed: 0.237 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.42	α = 90
b = 85.42	β = 90
c = 127.16	γ = 120

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-04-07 
• Released Date: 2002-05-22 
Deposition Author(s): Li, W., Srinivasula, S.M., Chai, J., Li, P., Wu, J.W., Zhang, Z., Alnemri, E.S., Shi, Y.

Revision History 

• Version 1.0: 2002-05-22
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance