9MWW | pdb_00009mww

Structure of human endothelial nitric oxide synthase heme domain bound with N-(3-(((2-(3-(aminomethyl)-[1,1'-biphenyl]-4-yl)ethyl)amino)methyl)phenyl)thiazole-5-carboximidamide

PDB DOI: https://doi.org/10.2210/pdb9MWW/pdb

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

Deposited: 2025-01-17 Released: 2025-11-26
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: 1.80 Å
R-Value Free:
0.231 (Depositor), 0.225 (DCC)
R-Value Work:
0.194 (Depositor), 0.189 (DCC)
R-Value Observed:
0.196 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

human endothelial nitric oxide synthase

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

To be published.

Macromolecule Content

Total Structure Weight: 206.49 kDa
Atom Count: 14,209
Modeled Residue Count: 1,605
Deposited Residue Count: 1,760
Unique protein chains: 1

Macromolecules

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(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) Explore P29474 Go to UniProtKB: P29474
PHAROS: P29474 GTEx: ENSG00000164867
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P29474
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 Q [auth B] SDF format, chain OA [auth D] SDF format, chain E [auth A] SDF format, chain BA [auth C] MOL2 format, chain Q [auth B] MOL2 format, chain OA [auth D] MOL2 format, chain E [auth A] MOL2 format, chain BA [auth C] mmCIF format, chain Q [auth B] mmCIF format, chain OA [auth D] mmCIF format, chain E [auth A] mmCIF format, chain BA [auth C]	BA [auth C], E [auth A], OA [auth D], Q [auth B]	PROTOPORPHYRIN IX CONTAINING FE C₃₄ H₃₂ Fe N₄ O₄ KABFMIBPWCXCRK-RGGAHWMASA-L		Interactions Focus chain BA [auth C] Focus chain E [auth A] Focus chain OA [auth D] Focus chain Q [auth B] Interactions & Density Focus chain BA [auth C] Focus chain E [auth A] Focus chain OA [auth D] Focus chain Q [auth B]
A1BTW (Subject of Investigation/LOI) Query on A1BTW Download Ideal Coordinates CCD File SDF format, chain S [auth B] SDF format, chain QA [auth D] SDF format, chain G [auth A] SDF format, chain DA [auth C] MOL2 format, chain S [auth B] MOL2 format, chain QA [auth D] MOL2 format, chain G [auth A] MOL2 format, chain DA [auth C] mmCIF format, chain S [auth B] mmCIF format, chain QA [auth D] mmCIF format, chain G [auth A] mmCIF format, chain DA [auth C]	DA [auth C], G [auth A], QA [auth D], S [auth B]	N-{3-[({2-[3-(aminomethyl)[1,1'-biphenyl]-4-yl]ethyl}amino)methyl]phenyl}-1,3-thiazole-5-carboximidamide C₂₆ H₂₇ N₅ S PNPNXQZLXLOQCO-UHFFFAOYSA-N		Interactions Focus chain DA [auth C] Focus chain G [auth A] Focus chain QA [auth D] Focus chain S [auth B] Interactions & Density Focus chain DA [auth C] Focus chain G [auth A] Focus chain QA [auth D] Focus chain S [auth B]
H4B Query on H4B Download Ideal Coordinates CCD File SDF format, chain R [auth B] SDF format, chain PA [auth D] SDF format, chain F [auth A] SDF format, chain CA [auth C] MOL2 format, chain R [auth B] MOL2 format, chain PA [auth D] MOL2 format, chain F [auth A] MOL2 format, chain CA [auth C] mmCIF format, chain R [auth B] mmCIF format, chain PA [auth D] mmCIF format, chain F [auth A] mmCIF format, chain CA [auth C]	CA [auth C], F [auth A], PA [auth D], R [auth B]	5,6,7,8-TETRAHYDROBIOPTERIN C₉ H₁₅ N₅ O₃ FNKQXYHWGSIFBK-RPDRRWSUSA-N		Interactions Focus chain CA [auth C] Focus chain F [auth A] Focus chain PA [auth D] Focus chain R [auth B] Interactions & Density Focus chain CA [auth C] Focus chain F [auth A] Focus chain PA [auth D] Focus chain R [auth B]
BTB Query on BTB Download Ideal Coordinates CCD File SDF format, chain V [auth B] SDF format, chain U [auth B] SDF format, chain TA [auth D] SDF format, chain SA [auth D] SDF format, chain J [auth A] SDF format, chain I [auth A] SDF format, chain GA [auth C] SDF format, chain FA [auth C] MOL2 format, chain V [auth B] MOL2 format, chain U [auth B] MOL2 format, chain TA [auth D] MOL2 format, chain SA [auth D] MOL2 format, chain J [auth A] MOL2 format, chain I [auth A] MOL2 format, chain GA [auth C] MOL2 format, chain FA [auth C] mmCIF format, chain V [auth B] mmCIF format, chain U [auth B] mmCIF format, chain TA [auth D] mmCIF format, chain SA [auth D] mmCIF format, chain J [auth A] mmCIF format, chain I [auth A] mmCIF format, chain GA [auth C] mmCIF format, chain FA [auth C]	FA [auth C] GA [auth C] I [auth A] J [auth A] SA [auth D] FA [auth C], GA [auth C], I [auth A], J [auth A], SA [auth D], TA [auth D], U [auth B], V [auth B]	2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C₈ H₁₉ N O₅ OWMVSZAMULFTJU-UHFFFAOYSA-N		Interactions Focus chain FA [auth C] Focus chain GA [auth C] Focus chain I [auth A] Focus chain J [auth A] Focus chain SA [auth D] Focus chain TA [auth D] Focus chain U [auth B] Focus chain V [auth B] Interactions & Density Focus chain FA [auth C] Focus chain GA [auth C] Focus chain I [auth A] Focus chain J [auth A] Focus chain SA [auth D] Focus chain TA [auth D] Focus chain U [auth B] Focus chain V [auth B]
GD Query on GD Download Ideal Coordinates CCD File SDF format, chain Z [auth B] SDF format, chain YA [auth D] SDF format, chain NA [auth D] SDF format, chain LA [auth C] MOL2 format, chain Z [auth B] MOL2 format, chain YA [auth D] MOL2 format, chain NA [auth D] MOL2 format, chain LA [auth C] mmCIF format, chain Z [auth B] mmCIF format, chain YA [auth D] mmCIF format, chain NA [auth D] mmCIF format, chain LA [auth C]	LA [auth C], NA [auth D], YA [auth D], Z [auth B]	GADOLINIUM ATOM Gd UIWYJDYFSGRHKR-UHFFFAOYSA-N		Interactions Focus chain LA [auth C] Focus chain NA [auth D] Focus chain YA [auth D] Focus chain Z [auth B] Interactions & Density Focus chain LA [auth C] Focus chain NA [auth D] Focus chain YA [auth D] Focus chain Z [auth B]
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain X [auth B] SDF format, chain WA [auth D] SDF format, chain W [auth B] SDF format, chain VA [auth D] SDF format, chain UA [auth D] SDF format, chain M [auth A] SDF format, chain L [auth A] SDF format, chain K [auth A] SDF format, chain JA [auth C] SDF format, chain IA [auth C] SDF format, chain HA [auth C] MOL2 format, chain X [auth B] MOL2 format, chain WA [auth D] MOL2 format, chain W [auth B] MOL2 format, chain VA [auth D] MOL2 format, chain UA [auth D] MOL2 format, chain M [auth A] MOL2 format, chain L [auth A] MOL2 format, chain K [auth A] MOL2 format, chain JA [auth C] MOL2 format, chain IA [auth C] MOL2 format, chain HA [auth C] mmCIF format, chain X [auth B] mmCIF format, chain WA [auth D] mmCIF format, chain W [auth B] mmCIF format, chain VA [auth D] mmCIF format, chain UA [auth D] mmCIF format, chain M [auth A] mmCIF format, chain L [auth A] mmCIF format, chain K [auth A] mmCIF format, chain JA [auth C] mmCIF format, chain IA [auth C] mmCIF format, chain HA [auth C]	HA [auth C] IA [auth C] JA [auth C] K [auth A] L [auth A] HA [auth C], IA [auth C], JA [auth C], K [auth A], L [auth A], M [auth A], UA [auth D], VA [auth D], W [auth B], WA [auth D], X [auth B]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain HA [auth C] Focus chain IA [auth C] Focus chain JA [auth C] Focus chain K [auth A] Focus chain L [auth A] Focus chain M [auth A] Focus chain UA [auth D] Focus chain VA [auth D] Focus chain W [auth B] Focus chain WA [auth D] Focus chain X [auth B] Interactions & Density Focus chain HA [auth C] Focus chain IA [auth C] Focus chain JA [auth C] Focus chain K [auth A] Focus chain L [auth A] Focus chain M [auth A] Focus chain UA [auth D] Focus chain VA [auth D] Focus chain W [auth B] Focus chain WA [auth D] Focus chain X [auth B]
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain O [auth A] SDF format, chain MA [auth C] MOL2 format, chain O [auth A] MOL2 format, chain MA [auth C] mmCIF format, chain O [auth A] mmCIF format, chain MA [auth C]	MA [auth C], O [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain MA [auth C] Focus chain O [auth A] Interactions & Density Focus chain MA [auth C] Focus chain O [auth A]
ACT Query on ACT Download Ideal Coordinates CCD File SDF format, chain H [auth A] SDF format, chain RA [auth D] SDF format, chain T [auth B] SDF format, chain EA [auth C] MOL2 format, chain H [auth A] MOL2 format, chain RA [auth D] MOL2 format, chain T [auth B] MOL2 format, chain EA [auth C] mmCIF format, chain H [auth A] mmCIF format, chain RA [auth D] mmCIF format, chain T [auth B] mmCIF format, chain EA [auth C]	EA [auth C], H [auth A], RA [auth D], T [auth B]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain EA [auth C] Focus chain H [auth A] Focus chain RA [auth D] Focus chain T [auth B] Interactions & Density Focus chain EA [auth C] Focus chain H [auth A] Focus chain RA [auth D] Focus chain T [auth B]
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain P [auth A] SDF format, chain AA [auth B] MOL2 format, chain P [auth A] MOL2 format, chain AA [auth B] mmCIF format, chain P [auth A] mmCIF format, chain AA [auth B]	AA [auth B], P [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain AA [auth B] Focus chain P [auth A] Interactions & Density Focus chain AA [auth B] Focus chain P [auth A]
CL Query on CL Download Ideal Coordinates CCD File SDF format, chain Y [auth B] SDF format, chain XA [auth D] SDF format, chain N [auth A] SDF format, chain KA [auth C] MOL2 format, chain Y [auth B] MOL2 format, chain XA [auth D] MOL2 format, chain N [auth A] MOL2 format, chain KA [auth C] mmCIF format, chain Y [auth B] mmCIF format, chain XA [auth D] mmCIF format, chain N [auth A] mmCIF format, chain KA [auth C]	KA [auth C], N [auth A], XA [auth D], Y [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain KA [auth C] Focus chain N [auth A] Focus chain XA [auth D] Focus chain Y [auth B] Interactions & Density Focus chain KA [auth C] Focus chain N [auth A] Focus chain XA [auth D] Focus chain Y [auth B]