Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 14.73 kDa 
• Atom Count: 1200 
• Modelled Residue Count: 130 
• Deposited Residue Count: 130 
• Unique protein chains: 1

1OUA

CONTRIBUTION OF HYDROPHOBIC RESIDUES TO THE STABILITY OF HUMAN LYSOZYME: X-RAY STRUCTURE OF THE I56T MUTANT

• PDB DOI: 10.2210/pdb1OUA/pdb

• Classification: HYDROLASE (O-GLYCOSYL)
• Organism(s): Homo sapiens
• Expression System: Saccharomyces cerevisiae
• Mutation(s): No 


• Deposited: 1996-08-23 Released: 1997-02-12 
• Deposition Author(s): Takano, K., Funahashi, J., Yamagata, Y., Ogasahara, K., Yutani, K.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Work: 0.148 
• R-Value Observed: 0.148 

Literature

The structure, stability, and folding process of amyloidogenic mutant human lysozyme.

Funahashi, J., Takano, K., Ogasahara, K., Yamagata, Y., Yutani, K.

(1996) J Biochem 120: 1216-1223

• PubMed: 9010773 
• DOI: 10.1093/oxfordjournals.jbchem.a021544
• Primary Citation of Related Structures:  
  1OUA


• PubMed Abstract: 
  

The physicochemical properties of an amyloidogenic mutant human lysozyme (Ile56Thr) were examined in order to elucidate the mechanism of amyloid formation. The crystal structure of the mutant protein was the same as the wild-type structure, except that the hydroxyl group of the introduced Thr56 formed a hydrogen bond with a water molecule in the interior of the protein. The other physicochemical properties of the mutant protein in the native state were not different from those of the wild-type protein. However, the equilibrium and kinetic stabilities of the mutant protein were remarkably decreased due to the introduction of a polar residue (Thr) in the interior of the molecule. It can be concluded that the amyloid formation of the mutant human lysozyme is due to a tendency to favor (partly or/and completely) denatured structures.

---

Related Citations: 

• Contribution of Hydrophobic Residues to the Stability of Human Lysozyme: Calorimetric Studies and X-Ray Structural Analysis of the Five Isoleucine to Valine Mutants
  Takano, K., Ogasahara, K., Kaneda, H., Yamagata, Y., Fujii, S., Kanaya, E., Kikuchi, M., Oobatake, M., Yutani, K.
  (1995) J Mol Biol 254: 62

---

Organizational Affiliation: 

Institute for Protein Research, Osaka University.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
LYSOZYME	A	130	Homo sapiens	Mutation(s): 0  Gene Names: HUMAN LYSOZYME WITH ILE 56 REP, LYZ, LZM EC: 3.2.1.17
UniProt & NIH Common Fund Data Resources
Find proteins for P61626 (Homo sapiens) Explore P61626  Go to UniProtKB:  P61626
PHAROS:  P61626

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NA	B [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Work: 0.148 
• R-Value Observed: 0.148 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.69	α = 90
b = 61.03	β = 90
c = 33.79	γ = 90

Software Package:

Software Name	Purpose
RIGAKU	data collection
RIGAKU	data reduction
X-PLOR	model building
X-PLOR	refinement
RIGAKU	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1996-08-23 
• Released Date: 1997-02-12 
Deposition Author(s): Takano, K., Funahashi, J., Yamagata, Y., Ogasahara, K., Yutani, K.

Revision History  

• Version 1.0: 1997-02-12
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-11-29
  Changes: Derived calculations, Other