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: 151.71 kDa 
• Atom Count: 11004 
• Modelled Residue Count: 1404 
• Deposited Residue Count: 1404 
• Unique protein chains: 1

1JQB

Alcohol Dehydrogenase from Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability

• DOI: 10.2210/pdb1JQB/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Clostridium beijerinckii
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2001-08-05 Released: 2002-11-13 
• Deposition Author(s): Levin, I., Frolow, F., Bogin, O., Peretz, M., Hacham, Y., Burstein, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.97 Å
• R-Value Free: 0.247 
• R-Value Work: 0.219 
• R-Value Observed: 0.219 

Literature

Structural basis for the enhanced thermal stability of alcohol dehydrogenase mutants from the mesophilic bacterium Clostridium beijerinckii: contribution of salt bridging

Bogin, O., Levin, I., Hacham, Y., Tel-Or, S., Peretz, M., Frolow, F., Burstein, Y.

(2002) Protein Sci 11: 2561-2574

• PubMed: 12381840 
• DOI: 10.1110/ps.0222102
• Primary Citation of Related Structures:  
  1JQB


• PubMed Abstract: 
  

Previous research in our laboratory comparing the three-dimensional structural elements of two highly homologous alcohol dehydrogenases, one from the mesophile Clostridium beijerinckii (CbADH) and the other from the extreme thermophile Thermoanaerobacter brockii (TbADH), suggested that in the thermophilic enzyme, an extra intrasubunit ion pair (Glu224-Lys254) and a short ion-pair network (Lys257-Asp237-Arg304-Glu165) at the intersubunit interface might contribute to the extreme thermal stability of TbADH. In the present study, we used site-directed mutagenesis to replace these structurally strategic residues in CbADH with the corresponding amino acids from TbADH, and we determined the effect of such replacements on the thermal stability of CbADH. Mutations in the intrasubunit ion pair region increased thermostability in the single mutant S254K- and in the double mutant V224E/S254K-CbADH, but not in the single mutant V224E-CbADH. Both single amino acid replacements, M304R- and Q165E-CbADH, in the region of the intersubunit ion pair network augmented thermal stability, with an additive effect in the double mutant M304R/Q165E-CbADH. To investigate the precise mechanism by which such mutations alter the molecular structure of CbADH to achieve enhanced thermostability, we constructed a quadruple mutant V224E/S254K/Q165E/M304R-CbADH and solved its three-dimensional structure. The overall results indicate that the amino acid substitutions in CbADH mutants with enhanced thermal stability reinforce the quaternary structure of the enzyme by formation of an extended network of intersubunit ion pairs and salt bridges, mediated by water molecules, and by forming a new intrasubunit salt bridge.

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Organizational Affiliation: 

Department of Organic Chemistry, The Weizmann Institute of Science, Rehovot 76100, Israel.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NADP-dependent Alcohol Dehydrogenase	A, B, C, D	351	Clostridium beijerinckii	Mutation(s): 4  Gene Names: adh EC: 1.1.1.2 (PDB Primary Data), 1.1.1.80 (UniProt)
Find proteins for P25984 (Clostridium beijerinckii) Explore P25984  Go to UniProtKB:  P25984

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	A, B, C, D	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.97 Å
• R-Value Free: 0.247 
• R-Value Work: 0.219 
• R-Value Observed: 0.219 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 86.7	α = 90
b = 147.8	β = 90
c = 125.1	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2001-08-05 
• Released Date: 2002-11-13 
Deposition Author(s): Levin, I., Frolow, F., Bogin, O., Peretz, M., Hacham, Y., Burstein, Y.

Revision History  

• Version 1.0: 2002-11-13
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance