Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 17906.95 
• Atom Count: 1311 
• Residue Count: 153 
• Unique protein chains: 1

4MXL

X-ray structure of ZnPFeBMb1

• DOI: 10.2210/pdb4MXL/pdb

• Classification: OXYGEN TRANSPORT
• Organism(s): Physeter catodon
• Expression System: Escherichia coli
• Mutation(s): 3 


• Deposited: 2013-09-26 Released: 2014-02-12 
• Deposition Author(s): Chakraborty, S., Lu, Y., Petrik, I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.5 Å
• R-Value Free: 0.255 
• R-Value Work: 0.207 

Literature

Spectroscopic and computational study of a nonheme iron nitrosyl center in a biosynthetic model of nitric oxide reductase.

Chakraborty, S., Reed, J., Ross, M., Nilges, M.J., Petrik, I.D., Ghosh, S., Hammes-Schiffer, S., Sage, J.T., Zhang, Y., Schulz, C.E., Lu, Y.

(2014) Angew.Chem.Int.Ed.Engl. 53: 2417-2421

• PubMed: 24481708 
• DOI: 10.1002/anie.201308431
• Primary Citation of Related Structures:  
  4MXK


• PubMed Abstract: 
  

A major barrier to understanding the mechanism of nitric oxide reductases (NORs) is the lack of a selective probe of NO binding to the nonheme FeB center. By replacing the heme in a biosynthetic model of NORs, which structurally and functionally mimics NORs, with isostructural ZnPP, the electronic structure and functional properties of the FeB nitrosyl complex was probed. This approach allowed observation of the first S=3/2 nonheme {FeNO}(7) complex in a protein-based model system of NOR. Detailed spectroscopic and computational studies show that the electronic state of the {FeNO}(7) complex is best described as a high spin ferrous iron (S=2) antiferromagnetically coupled to an NO radical (S=1/2) [Fe(2+)-NO(.)]. The radical nature of the FeB -bound NO would facilitate N-N bond formation by radical coupling with the heme-bound NO. This finding, therefore, supports the proposed trans mechanism of NO reduction by NORs.

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Organizational Affiliation: 

Department of Chemistry and Biochemistry, University of Illinois at Urbana-Champaign, Urbana, IL (USA).

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Myoglobin	A	153	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 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ZNH	A	PROTOPORPHYRIN IX CONTAINING ZN C34 H32 N4 O4 Zn FUTVBRXUIKZACV-UMRYFLQFDI

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.5 Å
• R-Value Free: 0.255 
• R-Value Work: 0.207 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 39.754	α = 90.00
b = 48.233	β = 90.00
c = 77.819	γ = 90.00

Software Package:

Software Name	Purpose
PHASER	phasing
REFMAC	refinement
SCALEPACK	data scaling
MAR345dtb	data collection
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-09-26 
• Released Date: 2014-02-12 
• Deposition Author(s): Chakraborty, S., Lu, Y., Petrik, I.

Revision History 

• Version 1.0: 2014-02-12
  Type: Initial release
• Version 1.1: 2014-02-19
  Type: Other
• Version 1.2: 2014-03-19
  Type: Database references