Biological Assembly 1  

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 99291.70 
• Atom Count: 6981 
• Residue Count: 840 
• Unique protein chains: 1

1ZVL

Rat Neuronal Nitric Oxide Synthase Oxygenase Domain complexed with natural substrate L-Arg.

• DOI: 10.2210/pdb1ZVL/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli


• Deposited: 2005-06-02 Released: 2005-08-02 
• Deposition Author(s): Matter, H., Kumar, H.S., Fedorov, R., Frey, A., Kotsonis, P., Hartmann, E., Frohlich, L.G., Reif, A., Pfleiderer, W., Scheurer, P., Ghosh, D.K., Schlichting, I., Schmidt, H.H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.5 Å
• R-Value Free: 0.249 
• R-Value Work: 0.201 

Literature

Structural Analysis of Isoform-Specific Inhibitors Targeting the Tetrahydrobiopterin Binding Site of Human Nitric Oxide Synthases.

Matter, H., Kumar, H.S., Fedorov, R., Frey, A., Kotsonis, P., Hartmann, E., Frohlich, L.G., Reif, A., Pfleiderer, W., Scheurer, P., Ghosh, D.K., Schlichting, I., Schmidt, H.H.

(2005) J.Med.Chem. 48: 4783-4792

• PubMed: 16033258 
• DOI: 10.1021/jm050007x
• Primary Citation of Related Structures:  
  1ZVI


• PubMed Abstract: 
  

Nitric oxide synthesized from l-arginine by nitric oxide synthase isoforms (NOS-I-III) is physiologically important but also can be deleterious when overproduced. Selective NOS inhibitors are of clinical interest, given their differing pathophysiological roles. Here we describe our approach to target the unique NOS (6R,1'R,2'S)-5,6,7,8-tetrahydrobiopterin (H(4)Bip) binding site. By a combination of ligand- and structure-based design, the structure-activity relationship (SAR) for a focused set of 41 pteridine analogues on four scaffolds was developed, revealing selective NOS-I inhibitors. The X-ray crystal structure of rat NOS-I dimeric-oxygenase domain with H(4)Bip and l-arginine was determined and used for human isoform homology modeling. All available NOS structural information was subjected to comparative analysis of favorable protein-ligand interactions using the GRID/concensus principal component analysis (CPCA) approach to identify the isoform-specific interaction site. Our interpretation, based on protein structures, is in good agreement with the ligand SAR and thus permits the rational design of next-generation inhibitors targeting the H(4)Bip binding site with enhanced isoform selectivity for therapeutics in pathology with NO overproduction.

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Organizational Affiliation: 

Sanofi-Aventis, Chemical Sciences, Drug Design, Building G 878, D-65926 Frankfurt am Main, Germany.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Nitric-oxide synthase, brain	A, B	420	Rattus norvegicus	Mutation(s): 0  Gene Names: Nos1 (Bnos) EC: 1.14.13.39
Find proteins for P29476 (Rattus norvegicus) Go to UniProtKB:  P29476

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ZN	A	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
HEM	A, B	PROTOPORPHYRIN IX CONTAINING FE HEME C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
H4B	A, B	5,6,7,8-TETRAHYDROBIOPTERIN C9 H15 N5 O3 FNKQXYHWGSIFBK-RPDRRWSUSA-N
ARG	A, B	ARGININE C6 H15 N4 O2 ODKSFYDXXFIFQN-BYPYZUCNSA-O

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.5 Å
• R-Value Free: 0.249 
• R-Value Work: 0.201 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 52.360	α = 90.00
b = 111.289	β = 90.00
c = 165.184	γ = 90.00

Software Package:

Software Name	Purpose
AMoRE	phasing
XDS	data reduction
ProDC	data collection
XDS	data scaling
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2005-06-02 
• Released Date: 2005-08-02 
• Deposition Author(s): Matter, H., Kumar, H.S., Fedorov, R., Frey, A., Kotsonis, P., Hartmann, E., Frohlich, L.G., Reif, A., Pfleiderer, W., Scheurer, P., Ghosh, D.K., Schlichting, I., Schmidt, H.H.

Revision History 

• Version 1.0: 2005-08-02
  Type: Initial release
• Version 1.1: 2008-04-30
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2017-10-11
  Type: Refinement description