2NSE | pdb_00002nse

BOVINE ENDOTHELIAL NITRIC OXIDE SYNTHASE SUBSTRATE COMPLEX

PDB DOI: https://doi.org/10.2210/pdb2NSE/pdb

Classification: COMPLEX (OXIDOREDUCTASE/PEPTIDE)
Organism(s): Bos taurus
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 1998-08-13 Released: 1999-05-25
Deposition Author(s): Raman, C.S., Li, H., Martasek, P., Kral, V., Masters, B.S.S., Poulos, T.L.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.34 Å
R-Value Free:
0.305 (Depositor)
R-Value Work:
0.216 (Depositor)
R-Value Observed:
0.216 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Crystal structure of constitutive endothelial nitric oxide synthase: a paradigm for pterin function involving a novel metal center.

Raman, C.S., Li, H., Martasek, P., Kral, V., Masters, B.S., Poulos, T.L.

(1998) Cell 95: 939-950

PubMed: 9875848 Search on PubMed
DOI: https://doi.org/10.1016/s0092-8674(00)81718-3
Primary Citation Related Structures:
1NSE, 2NSE, 3NSE, 4NSE

PubMed Abstract:
Nitric oxide, a key signaling molecule, is produced by a family of enzymes collectively called nitric oxide synthases (NOS). Here, we report the crystal structure of the heme domain of endothelial NOS in tetrahydrobiopterin (H4B)-free and -bound forms at 1.95 A and 1.9 A resolution, respectively. In both structures a zinc ion is tetrahedrally coordinated to pairs of symmetry-related cysteine residues at the dimer interface. The phylogenetically conserved Cys-(X)4-Cys motif and its strategic location establish a structural role for the metal center in maintaining the integrity of the H4B-binding site. The unexpected recognition of the substrate, L-arginine, at the H4B site indicates that this site is poised to stabilize a positively charged pterin ring and suggests a model involving a cationic pterin radical in the catalytic cycle.

Organizational Affiliation

Department of Molecular Biology and Biochemistry, University of California, Irvine 92697-3900, USA.

Macromolecule Content

Total Structure Weight: 101.92 kDa
Atom Count: 7,007
Modeled Residue Count: 830
Deposited Residue Count: 888
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NITRIC OXIDE SYNTHASE	A, B	444	Bos taurus	Mutation(s): 0 EC: 1.14.13.39
UniProt
Find proteins for P29473 (Bos taurus) Explore P29473 Go to UniProtKB: P29473
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P29473
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 6 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
HEM Query on HEM Download:Ideal Coordinates CCD File SDF format, chain J [auth B] SDF format, chain E [auth A] MOL2 format, chain J [auth B] MOL2 format, chain E [auth A] mmCIF format, chain J [auth B] mmCIF format, chain E [auth A]	E [auth A], J [auth B]	PROTOPORPHYRIN IX CONTAINING FE C₃₄ H₃₂ Fe N₄ O₄ KABFMIBPWCXCRK-RGGAHWMASA-L		Interactions Focus chain E [auth A] Focus chain J [auth B]
H4B Query on H4B Download:Ideal Coordinates CCD File SDF format, chain K [auth B] SDF format, chain F [auth A] MOL2 format, chain K [auth B] MOL2 format, chain F [auth A] mmCIF format, chain K [auth B] mmCIF format, chain F [auth A]	F [auth A], K [auth B]	5,6,7,8-TETRAHYDROBIOPTERIN C₉ H₁₅ N₅ O₃ FNKQXYHWGSIFBK-RPDRRWSUSA-N		Interactions Focus chain F [auth A] Focus chain K [auth B]
ARG Query on ARG Download:Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain I [auth B] MOL2 format, chain D [auth A] MOL2 format, chain I [auth B] mmCIF format, chain D [auth A] mmCIF format, chain I [auth B]	D [auth A], I [auth B]	ARGININE C₆ H₁₅ N₄ O₂ ODKSFYDXXFIFQN-BYPYZUCNSA-O		Interactions Focus chain D [auth A] Focus chain I [auth B]
CAC Query on CAC Download:Ideal Coordinates CCD File SDF format, chain G [auth B] SDF format, chain C [auth A] MOL2 format, chain G [auth B] MOL2 format, chain C [auth A] mmCIF format, chain G [auth B] mmCIF format, chain C [auth A]	C [auth A], G [auth B]	CACODYLATE ION C₂ H₆ As O₂ OGGXGZAMXPVRFZ-UHFFFAOYSA-M		Interactions Focus chain C [auth A] Focus chain G [auth B]
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain L [auth B] MOL2 format, chain L [auth B] mmCIF format, chain L [auth B]	L [auth B]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain L [auth B]
ZN Query on ZN Download:Ideal Coordinates CCD File SDF format, chain H [auth B] MOL2 format, chain H [auth B] mmCIF format, chain H [auth B]	H [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain H [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.34 Å
R-Value Free: 0.305 (Depositor)
R-Value Work: 0.216 (Depositor)
R-Value Observed: 0.216 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.06	α = 90
b = 106.38	β = 90
c = 156.38	γ = 90

Software Package:

Software Name	Purpose
DPS	data collection
SCALA	data scaling
SHARP	phasing
X-PLOR	model building
X-PLOR	refinement
DPS	data reduction
CCP4	data scaling
X-PLOR	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 1999-05-25

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 1999-05-25
Type: Initial release
Version 1.1: 2008-03-24
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Non-polymer description, Version format compliance
Version 1.3: 2024-02-21
Changes: Data collection, Database references, Derived calculations