Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 70.18 kDa 
• Atom Count: 4189 
• Modelled Residue Count: 589 
• Deposited Residue Count: 634 
• Unique protein chains: 3

2D26

Active site distortion is sufficient for proteinase inhibit second crystal structure of covalent serpin-proteinase complex

• PDB DOI: 10.2210/pdb2D26/pdb

• Classification: HYDROLASE/HYDROLASE INHIBITOR
• Organism(s): Homo sapiens, Sus scrofa
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2005-09-03 Released: 2005-11-29 
• Deposition Author(s): Dementiev, A., Dobo, J., Gettins, P.G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.30 Å
• R-Value Free: 0.312 
• R-Value Work: 0.251 
• R-Value Observed: 0.256 

Literature

Active Site Distortion Is Sufficient for Proteinase Inhibition by Serpins: Structure of the covalent complex of alpha 1-proteinase inhibitor with porcine pancreatic elastase

Dementiev, A., Dobo, J., Gettins, P.G.

(2006) J Biol Chem 281: 3452-3457

• PubMed: 16321984 
• DOI: 10.1074/jbc.M510564200
• Primary Citation of Related Structures:  
  2D26


• PubMed Abstract: 
  

We report here the x-ray structure of a covalent serpin-proteinase complex, alpha1-proteinase inhibitor (alpha1PI) with porcine pancreatic elastase (PPE), which differs from the only other x-ray structure of such a complex, that of alpha1PI with trypsin, in showing nearly complete definition of the proteinase. alpha1PI complexes with trypsin, PPE, and human neutrophil elastase (HNE) showed similar rates of deacylation and enhanced susceptibility to proteolysis by exogenous proteinases in solution. The differences between the two x-ray structures therefore cannot arise from intrinsic differences in the inhibition mechanism. However, self-proteolysis of purified complex resulted in rapid cleavage of the trypsin complex, slower cleavage of the PPE complex, and only minimal cleavage of the HNE complex. This suggests that the earlier alpha1 PI-trypsin complex may have been proteolyzed and that the present structure is more likely to be representative of serpin-proteinase complexes. The present structure shows that active site distortion alone is sufficient for inhibition and suggests that enhanced proteolysis is not necessarily exploited in vivo.

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Organizational Affiliation: 

Department of Biochemistry and Molecular Genetics, University of Illinois at Chicago, Chicago, Illinois 60607, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha-1-antitrypsin	A	358	Homo sapiens	Mutation(s): 7  Gene Names: SERPINA1, AAT, PI, PRO0684, PRO2209
UniProt & NIH Common Fund Data Resources
Find proteins for P01009 (Homo sapiens) Explore P01009  Go to UniProtKB:  P01009
PHAROS:  P01009 GTEx:  ENSG00000197249

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha-1-antitrypsin	B	36	Homo sapiens	Mutation(s): 3  Gene Names: SERPINA1, AAT, PI, PRO0684, PRO2209
UniProt & NIH Common Fund Data Resources
Find proteins for P01009 (Homo sapiens) Explore P01009  Go to UniProtKB:  P01009
PHAROS:  P01009 GTEx:  ENSG00000197249

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Elastase-1	C	240	Sus scrofa	Mutation(s): 0  Gene Names: CELA1, ELA1 EC: 3.4.21.36
UniProt
Find proteins for P00772 (Sus scrofa) Explore P00772  Go to UniProtKB:  P00772

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.30 Å
• R-Value Free: 0.312 
• R-Value Work: 0.251 
• R-Value Observed: 0.256 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 109.83	α = 90
b = 85.18	β = 121.01
c = 76.26	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
HKL-2000	data reduction
CNS	refinement
HKL-2000	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2005-09-03 
• Released Date: 2005-11-29 
Deposition Author(s): Dementiev, A., Dobo, J., Gettins, P.G.

Revision History  

• Version 1.0: 2005-11-29
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2021-11-10
  Changes: Database references