9MZ3 | pdb_00009mz3

Structure of human endothelial nitric oxide synthase heme domain bound 2-(2-amino-6-fluoro-4-methylquinolin-7-yl)-5-(2-aminoethyl)phenol

PDB DOI: https://doi.org/10.2210/pdb9MZ3/pdb

Classification: OXIDOREDUCTASE
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2025-01-22 Released: 2025-12-03
Deposition Author(s): Li, H., Poulos, T.L.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free:
0.250 (Depositor), 0.249 (DCC)
R-Value Work:
0.206 (Depositor), 0.207 (DCC)
R-Value Observed:
0.208 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.0 of the entry. See complete history.

Literature

Design and synthesis of 7-aryl-6-fluoro-2-aminoquinolines as potent and highly selective human neuronal nitric oxide synthase inhibitors

Ansari, A., Rathnayake, A.D., Li, H., Hardy, C.D., Poulos, T.L., Silverman, R.B.

To be published.

Macromolecule Content

Total Structure Weight: 206.02 kDa
Atom Count: 14,125
Modeled Residue Count: 1,606
Deposited Residue Count: 1,760
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nitric oxide synthase, endothelial	A, B, C, D	440	Homo sapiens	Mutation(s): 1 Gene Names: NOS3 EC: 1.14.13.39
UniProt & NIH Common Fund Data Resources
Find proteins for P29474 (Homo sapiens) Go to UniProtKB: P29474
PHAROS: P29474 GTEx: ENSG00000164867
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P29474-3
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 10 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
HEM Query on HEM Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain EA [auth C] SDF format, chain QA [auth D] SDF format, chain T [auth B] MOL2 format, chain E [auth A] MOL2 format, chain EA [auth C] MOL2 format, chain QA [auth D] MOL2 format, chain T [auth B] mmCIF format, chain E [auth A] mmCIF format, chain EA [auth C] mmCIF format, chain QA [auth D] mmCIF format, chain T [auth B]	E [auth A], EA [auth C], QA [auth D], T [auth B]	PROTOPORPHYRIN IX CONTAINING FE C₃₄ H₃₂ Fe N₄ O₄ KABFMIBPWCXCRK-RGGAHWMASA-L		Interactions Focus chain E [auth A] Focus chain EA [auth C] Focus chain QA [auth D] Focus chain T [auth B] Interactions & Density Focus chain E [auth A] Focus chain EA [auth C] Focus chain QA [auth D] Focus chain T [auth B]
A1BUH (Subject of Investigation/LOI) Query on A1BUH Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain GA [auth C] SDF format, chain SA [auth D] SDF format, chain V [auth B] MOL2 format, chain G [auth A] MOL2 format, chain GA [auth C] MOL2 format, chain SA [auth D] MOL2 format, chain V [auth B] mmCIF format, chain G [auth A] mmCIF format, chain GA [auth C] mmCIF format, chain SA [auth D] mmCIF format, chain V [auth B]	G [auth A], GA [auth C], SA [auth D], V [auth B]	(2M)-5-(2-aminoethyl)-2-(2-amino-6-fluoro-4-methylquinolin-7-yl)phenol C₁₈ H₁₈ F N₃ O VJYLZSYPPRLAQO-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain GA [auth C] Focus chain SA [auth D] Focus chain V [auth B] Interactions & Density Focus chain G [auth A] Focus chain GA [auth C] Focus chain SA [auth D] Focus chain V [auth B]
H4B Query on H4B Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain FA [auth C] SDF format, chain RA [auth D] SDF format, chain U [auth B] MOL2 format, chain F [auth A] MOL2 format, chain FA [auth C] MOL2 format, chain RA [auth D] MOL2 format, chain U [auth B] mmCIF format, chain F [auth A] mmCIF format, chain FA [auth C] mmCIF format, chain RA [auth D] mmCIF format, chain U [auth B]	F [auth A], FA [auth C], RA [auth D], U [auth B]	5,6,7,8-TETRAHYDROBIOPTERIN C₉ H₁₅ N₅ O₃ FNKQXYHWGSIFBK-RPDRRWSUSA-N		Interactions Focus chain F [auth A] Focus chain FA [auth C] Focus chain RA [auth D] Focus chain U [auth B] Interactions & Density Focus chain F [auth A] Focus chain FA [auth C] Focus chain RA [auth D] Focus chain U [auth B]
BTB Query on BTB Download Ideal Coordinates CCD File SDF format, chain AA [auth B] SDF format, chain H [auth A] SDF format, chain I [auth A] SDF format, chain JA [auth C] SDF format, chain KA [auth C] SDF format, chain VA [auth D] SDF format, chain WA [auth D] SDF format, chain Z [auth B] MOL2 format, chain AA [auth B] MOL2 format, chain H [auth A] MOL2 format, chain I [auth A] MOL2 format, chain JA [auth C] MOL2 format, chain KA [auth C] MOL2 format, chain VA [auth D] MOL2 format, chain WA [auth D] MOL2 format, chain Z [auth B] mmCIF format, chain AA [auth B] mmCIF format, chain H [auth A] mmCIF format, chain I [auth A] mmCIF format, chain JA [auth C] mmCIF format, chain KA [auth C] mmCIF format, chain VA [auth D] mmCIF format, chain WA [auth D] mmCIF format, chain Z [auth B]	AA [auth B] H [auth A] I [auth A] JA [auth C] KA [auth C] AA [auth B], H [auth A], I [auth A], JA [auth C], KA [auth C], VA [auth D], WA [auth D], Z [auth B]	2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C₈ H₁₉ N O₅ OWMVSZAMULFTJU-UHFFFAOYSA-N		Interactions Focus chain AA [auth B] Focus chain H [auth A] Focus chain I [auth A] Focus chain JA [auth C] Focus chain KA [auth C] Focus chain VA [auth D] Focus chain WA [auth D] Focus chain Z [auth B] Interactions & Density Focus chain AA [auth B] Focus chain H [auth A] Focus chain I [auth A] Focus chain JA [auth C] Focus chain KA [auth C] Focus chain VA [auth D] Focus chain WA [auth D] Focus chain Z [auth B]
GD Query on GD Download Ideal Coordinates CCD File SDF format, chain AB [auth D] SDF format, chain CA [auth B] SDF format, chain OA [auth C] SDF format, chain P [auth A] MOL2 format, chain AB [auth D] MOL2 format, chain CA [auth B] MOL2 format, chain OA [auth C] MOL2 format, chain P [auth A] mmCIF format, chain AB [auth D] mmCIF format, chain CA [auth B] mmCIF format, chain OA [auth C] mmCIF format, chain P [auth A]	AB [auth D], CA [auth B], OA [auth C], P [auth A]	GADOLINIUM ATOM Gd UIWYJDYFSGRHKR-UHFFFAOYSA-N		Interactions Focus chain AB [auth D] Focus chain CA [auth B] Focus chain OA [auth C] Focus chain P [auth A] Interactions & Density Focus chain AB [auth D] Focus chain CA [auth B] Focus chain OA [auth C] Focus chain P [auth A]
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain L [auth A] SDF format, chain LA [auth C] SDF format, chain M [auth A] SDF format, chain MA [auth C] SDF format, chain N [auth A] SDF format, chain R [auth A] SDF format, chain XA [auth D] SDF format, chain Y [auth B] SDF format, chain YA [auth D] MOL2 format, chain L [auth A] MOL2 format, chain LA [auth C] MOL2 format, chain M [auth A] MOL2 format, chain MA [auth C] MOL2 format, chain N [auth A] MOL2 format, chain R [auth A] MOL2 format, chain XA [auth D] MOL2 format, chain Y [auth B] MOL2 format, chain YA [auth D] mmCIF format, chain L [auth A] mmCIF format, chain LA [auth C] mmCIF format, chain M [auth A] mmCIF format, chain MA [auth C] mmCIF format, chain N [auth A] mmCIF format, chain R [auth A] mmCIF format, chain XA [auth D] mmCIF format, chain Y [auth B] mmCIF format, chain YA [auth D]	L [auth A] LA [auth C] M [auth A] MA [auth C] N [auth A] L [auth A], LA [auth C], M [auth A], MA [auth C], N [auth A], R [auth A], XA [auth D], Y [auth B], YA [auth D]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain L [auth A] Focus chain LA [auth C] Focus chain M [auth A] Focus chain MA [auth C] Focus chain N [auth A] Focus chain R [auth A] Focus chain XA [auth D] Focus chain Y [auth B] Focus chain YA [auth D] Interactions & Density Focus chain L [auth A] Focus chain LA [auth C] Focus chain M [auth A] Focus chain MA [auth C] Focus chain N [auth A] Focus chain R [auth A] Focus chain XA [auth D] Focus chain Y [auth B] Focus chain YA [auth D]
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain PA [auth C] SDF format, chain Q [auth A] MOL2 format, chain PA [auth C] MOL2 format, chain Q [auth A] mmCIF format, chain PA [auth C] mmCIF format, chain Q [auth A]	PA [auth C], Q [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain PA [auth C] Focus chain Q [auth A] Interactions & Density Focus chain PA [auth C] Focus chain Q [auth A]
ACT Query on ACT Download Ideal Coordinates CCD File SDF format, chain HA [auth C] SDF format, chain IA [auth C] SDF format, chain J [auth A] SDF format, chain K [auth A] SDF format, chain TA [auth D] SDF format, chain UA [auth D] SDF format, chain W [auth B] SDF format, chain X [auth B] MOL2 format, chain HA [auth C] MOL2 format, chain IA [auth C] MOL2 format, chain J [auth A] MOL2 format, chain K [auth A] MOL2 format, chain TA [auth D] MOL2 format, chain UA [auth D] MOL2 format, chain W [auth B] MOL2 format, chain X [auth B] mmCIF format, chain HA [auth C] mmCIF format, chain IA [auth C] mmCIF format, chain J [auth A] mmCIF format, chain K [auth A] mmCIF format, chain TA [auth D] mmCIF format, chain UA [auth D] mmCIF format, chain W [auth B] mmCIF format, chain X [auth B]	HA [auth C] IA [auth C] J [auth A] K [auth A] TA [auth D] HA [auth C], IA [auth C], J [auth A], K [auth A], TA [auth D], UA [auth D], W [auth B], X [auth B]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain HA [auth C] Focus chain IA [auth C] Focus chain J [auth A] Focus chain K [auth A] Focus chain TA [auth D] Focus chain UA [auth D] Focus chain W [auth B] Focus chain X [auth B] Interactions & Density Focus chain HA [auth C] Focus chain IA [auth C] Focus chain J [auth A] Focus chain K [auth A] Focus chain TA [auth D] Focus chain UA [auth D] Focus chain W [auth B] Focus chain X [auth B]
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain DA [auth B] SDF format, chain S [auth A] MOL2 format, chain DA [auth B] MOL2 format, chain S [auth A] mmCIF format, chain DA [auth B] mmCIF format, chain S [auth A]	DA [auth B], S [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain DA [auth B] Focus chain S [auth A] Interactions & Density Focus chain DA [auth B] Focus chain S [auth A]
CL Query on CL Download Ideal Coordinates CCD File SDF format, chain BA [auth B] SDF format, chain NA [auth C] SDF format, chain O [auth A] SDF format, chain ZA [auth D] MOL2 format, chain BA [auth B] MOL2 format, chain NA [auth C] MOL2 format, chain O [auth A] MOL2 format, chain ZA [auth D] mmCIF format, chain BA [auth B] mmCIF format, chain NA [auth C] mmCIF format, chain O [auth A] mmCIF format, chain ZA [auth D]	BA [auth B], NA [auth C], O [auth A], ZA [auth D]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain BA [auth B] Focus chain NA [auth C] Focus chain O [auth A] Focus chain ZA [auth D] Interactions & Density Focus chain BA [auth B] Focus chain NA [auth C] Focus chain O [auth A] Focus chain ZA [auth D]