8AQF | pdb_00008aqf

CRYSTAL STRUCTURE OF HUMAN MONOGLYCERIDE LIPASE WITH COMPOUND LEI-515

• PDB DOI: https://doi.org/10.2210/pdb8AQF/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2022-08-12 Released: 2023-08-23 
• Deposition Author(s): Jiang, M., Huizenga, M., Wirt, J., Paloczi, J., Amedi, A., van der Berg, R., Benz, J., Collin, L., Deng, H., Driever, W., Florea, B., Grether, U., Janssen, A., Heitman, L., Lam, T.W., Mohr, F., Pavlovic, A., Ruf, I., Rutjes, H., Stevens, F., van der Vliet, D., van der Wel, T., Wittwer, M., Boeckel, C., Pacher, P., Hohmann, A., van der Stelt, M.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 
  0.178 (Depositor), 0.190 (DCC) 
• R-Value Work: 
  0.154 (Depositor), 0.170 (DCC) 

Literature

A monoacylglycerol lipase inhibitor showing therapeutic efficacy in mice without central side effects or dependence.

Jiang, M., Huizenga, M.C.W., Wirt, J.L., Paloczi, J., Amedi, A., van den Berg, R.J.B.H.N., Benz, J., Collin, L., Deng, H., Di, X., Driever, W.F., Florea, B.I., Grether, U., Janssen, A.P.A., Hankemeier, T., Heitman, L.H., Lam, T.W., Mohr, F., Pavlovic, A., Ruf, I., van den Hurk, H., Stevens, A.F., van der Vliet, D., van der Wel, T., Wittwer, M.B., van Boeckel, C.A.A., Pacher, P., Hohmann, A.G., van der Stelt, M.

(2023) Nat Commun 14: 8039-8039

• PubMed: 38052772 
• DOI: https://doi.org/10.1038/s41467-023-43606-3
• Primary Citation of Related Structures:  
  8AQF


• PubMed Abstract: 
  

  Monoacylglycerol lipase (MAGL) regulates endocannabinoid 2-arachidonoylglycerol (2-AG) and eicosanoid signalling. MAGL inhibition provides therapeutic opportunities but clinical potential is limited by central nervous system (CNS)-mediated side effects. Here, we report the discovery of LEI-515, a peripherally restricted, reversible MAGL inhibitor, using high throughput screening and a medicinal chemistry programme. LEI-515 increased 2-AG levels in peripheral organs, but not mouse brain. LEI-515 attenuated liver necrosis, oxidative stress and inflammation in a CCl ₄ -induced acute liver injury model. LEI-515 suppressed chemotherapy-induced neuropathic nociception in mice without inducing cardinal signs of CB ₁ activation. Antinociceptive efficacy of LEI-515 was blocked by CB ₂ , but not CB ₁ , antagonists. The CB ₁ antagonist rimonabant precipitated signs of physical dependence in mice treated chronically with a global MAGL inhibitor (JZL184), and an orthosteric cannabinoid agonist (WIN55,212-2), but not with LEI-515. Our data support targeting peripheral MAGL as a promising therapeutic strategy for developing safe and effective anti-inflammatory and analgesic agents.

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Organizational Affiliation: 
• Department of Molecular Physiology, Leiden University & Oncode Institute, Leiden, Netherlands.
Department of Psychological and Brain Sciences, Program in Neuroscience, Gill Center for Biomolecular Science, Indiana University, Bloomington, IN, USA.
Laboratory of Cardiovascular Physiology and Tissue Injury, National Institute of Health/NIAAA, Rockville, MD, USA.
Department of Bio-organic Synthesis, Leiden University, Leiden, Netherlands.
Roche Innovation Center Basel, F. Hoffmann-La Roche Ltd., Basel, Switzerland.
Metabolomics and analytics center, Leiden University, Leiden, Netherlands.
Division of Drug Discovery and Safety, Leiden University & Oncode Institute, Leiden, Netherlands.
Pivot Park Screening Centre, Oss, Netherlands.
Department of Psychological and Brain Sciences, Program in Neuroscience, Gill Center for Biomolecular Science, Indiana University, Bloomington, IN, USA. [e-mail].
Department of Molecular Physiology, Leiden University & Oncode Institute, Leiden, Netherlands. [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 36 kDa 
• Atom Count: 2,654 
• Modeled Residue Count: 289 
• Deposited Residue Count: 323 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Monoglyceride lipase	A	323	Homo sapiens	Mutation(s): 3  Gene Names: MGLL EC: 3.1.1.23
UniProt & NIH Common Fund Data Resources
Find proteins for Q99685 (Homo sapiens) Explore Q99685  Go to UniProtKB:  Q99685
PHAROS:  Q99685 GTEx:  ENSG00000074416

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NUX (Subject of Investigation/LOI)	B [auth A]	1-[(~{R})-[2-chloranyl-4-[(2~{S},3~{S})-4-(3-chlorophenyl)-2,3-dimethyl-piperazin-1-yl]carbonyl-phenyl]sulfinyl]-3,3-bis(fluoranyl)pentan-2-one C24 H26 Cl2 F2 N2 O3 S WYHRZGBTLDYJGW-GLVLYPABSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free:  0.178 (Depositor), 0.190 (DCC) 
• R-Value Work:  0.154 (Depositor), 0.170 (DCC) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 91.625	α = 90
b = 127.568	β = 90
c = 60.358	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SADABS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-08-23 
Deposition Author(s): Jiang, M., Huizenga, M., Wirt, J., Paloczi, J., Amedi, A., van der Berg, R., Benz, J., Collin, L., Deng, H., Driever, W., Florea, B., Grether, U., Janssen, A., Heitman, L., Lam, T.W., Mohr, F., Pavlovic, A., Ruf, I., Rutjes, H., Stevens, F., van der Vliet, D., van der Wel, T., Wittwer, M., Boeckel, C., Pacher, P., Hohmann, A., van der Stelt, M.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2023-08-23
  Type: Initial release
  
• Version 1.1: 2025-03-12
  Changes: Database references, Structure summary