Biological Assembly 1  

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

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 14.33 kDa 
• Atom Count: 1099 
• Modelled Residue Count: 129 
• Deposited Residue Count: 129 
• Unique protein chains: 1

1RFP

ANALYSIS OF THE STABILIZATION OF HEN LYSOZYME WITH THE HELIX DIPOLE AND CHARGED SIDE CHAINS

• PDB DOI: 10.2210/pdb1RFP/pdb

• Classification: HYDROLASE
• Organism(s): Gallus gallus
• Expression System: Saccharomyces cerevisiae
• Mutation(s): No 


• Deposited: 1996-11-14 Released: 1997-05-15 
• Deposition Author(s): Motoshima, H., Ohmura, T., Ueda, T., Imoto, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Work: 0.168 
• R-Value Observed: 0.168 

Literature

Analysis of the stabilization of hen lysozyme by helix macrodipole and charged side chain interaction.

Motoshima, H., Mine, S., Masumoto, K., Abe, Y., Iwashita, H., Hashimoto, Y., Chijiiwa, Y., Ueda, T., Imoto, T.

(1997) J Biochem 121: 1076-1081

• PubMed: 9354379 
• DOI: 10.1093/oxfordjournals.jbchem.a021697
• Primary Citation of Related Structures:  
  1KXW, 1KXX, 1KXY, 1RFP


• PubMed Abstract: 
  

In the N-terminal region of the alpha-helix of the c-type lysozymes, two Asx residues exist at the 18th and 27th positions. Hen lysozyme has Asp18/Asn27 (18D/27N), and we prepared three mutant lysozymes, Asn18/Asn27 (18N/27N), Asn18/Asp27 (18N/27D), and Asp18/Asp27 (18D/27D). The stability of the wild-type (18D/27N) lysozyme supported the existence of a hydrogen bond between the side chain of Asp18 and the amide group at the N1 position in the alpha-helix, while the stability of the 18N/27D lysozyme supported the presence of the capping box between the Ser24 (N-cap) and Asp27 residues. Although electrostatic repulsion was observed between Asp18 and Asp27 residues in 18D/27D lysozyme, the dissociation of each residue contributed to stabilizing the B-helix in 18D/27D lysozyme through hydrogen bonding and charge-helix macrodipole interaction. This is the first evidence that two neighboring negative charges at the N-terminus of the helix both increased the stability of the protein.

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Organizational Affiliation: 

Graduate School of Pharmaceutical Sciences, Kyushu University 62, Fukuoka.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
LYSOZYME	A	129	Gallus gallus	Mutation(s): 0  Gene Names: HEN LYSOZYME, LYZ EC: 3.2.1.17
UniProt
Find proteins for P00698 (Gallus gallus) Explore P00698  Go to UniProtKB:  P00698

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Work: 0.168 
• R-Value Observed: 0.168 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.21	α = 90
b = 79.21	β = 90
c = 37.97	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1996-11-14 
• Released Date: 1997-05-15 
Deposition Author(s): Motoshima, H., Ohmura, T., Ueda, T., Imoto, T.

Revision History  

• Version 1.0: 1997-05-15
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance