Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 18382.93 
• Atom Count: 1325 
• Residue Count: 154 
• Unique protein chains: 1

1NAZ

structure of microgravity-grown oxidized myoglobin mutant YQR (ISS8A)

• DOI: 10.2210/pdb1NAZ/pdb

• Classification: oxygen storage/transport
• Organism(s): Physeter catodon
• Expression System: Escherichia coli
• Mutation(s): 3 


• Deposited: 2002-11-30 Released: 2003-06-10 
• Deposition Author(s): Miele, A.E., Federici, L., Sciara, G., Draghi, F., Brunori, M., Vallone, B.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.04 Å
• R-Value Free: 0.146 
• R-Value Work: 0.132 

Literature

Analysis of the effect of microgravity on protein crystal quality: the case of a myoglobin triple mutant.

Miele, A.E., Federici, L., Sciara, G., Draghi, F., Brunori, M., Vallone, B.

(2003) Acta Crystallogr.,Sect.D 59: 982-988

• PubMed: 12777759 
• Primary Citation of Related Structures:  
  1N9X, 1N9I, 1N9H, 1N9F


• PubMed Abstract: 
  

Crystals of the Met derivative of the sperm whale myoglobin triple mutant Mb-YQR [L(B10)Y, H(E7)Q and T(E10)R] were grown under microgravity conditions and on earth by vapour diffusion. A comparison of crystal quality after complete data collection and processing shows how microgravity-grown crystals diffract to better resolution and lead to considerably improved statistics for X-ray diffraction data compared with crystals grown on earth under the same conditions. The same set of experiments was reproduced on two different Spacelab missions (ISS 6A and ISS 8A) in 2001 and 2002. The structure of this mutant myoglobin, refined using data collected at ELETTRA (Trieste, Italy) from both kinds of crystals, shows that X-ray diffraction from microgravity-grown crystals leads to better defined electron-density maps as well as improved geometrical quality of the refined model. Improvement of the stereochemical parameters of a protein structure is fundamental to quantitative analysis of its function and dynamics and hence to thorough understanding of the molecular mechanisms of action.

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Organizational Affiliation: 

Dipartimento di Scienze Biochimiche and CNR Istituto di Biologia e Patologia Molecolari, Universita di Roma La Sapienza, P.le A. Moro 5, 00185 Rome, Italy.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Myoglobin	A	154	Physeter catodon	Mutation(s): 3  Gene Names: MB
Find proteins for P02185 (Physeter catodon) Go to Gene View: MB Go to UniProtKB:  P02185

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
SO4	A	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
OH	A	HYDROXIDE ION H O XLYOFNOQVPJJNP-UHFFFAOYSA-M
HEM	A	PROTOPORPHYRIN IX CONTAINING FE HEME C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.04 Å
• R-Value Free: 0.146 
• R-Value Work: 0.132 
• Space Group: P 6

Unit Cell:

Length (Å)	Angle (°)
a = 90.060	α = 90.00
b = 90.060	β = 90.00
c = 45.170	γ = 120.00

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
AMoRE	phasing
DENZO	data reduction
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-11-30 
• Released Date: 2003-06-10 
• Deposition Author(s): Miele, A.E., Federici, L., Sciara, G., Draghi, F., Brunori, M., Vallone, B.

Revision History 

• Version 1.0: 2003-06-10
  Type: Initial release
• Version 1.1: 2008-04-28
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance