8RVF | pdb_00008rvf

CRYSTAL STRUCTURE OF HUMAN MONOGLYCERIDE LIPASE IN COMPLEX WITH COMPOUND 5


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.43 Å
  • R-Value Free: 
    0.222 (Depositor), 0.216 (DCC) 
  • R-Value Work: 
    0.194 (Depositor), 0.188 (DCC) 
  • R-Value Observed: 
    0.195 (Depositor) 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Highly Specific Miniaturized Fluorescent Monoacylglycerol Lipase Probes Enable Translational Research.

Hentsch, A.Guberman, M.Radetzki, S.Kaushik, S.Huizenga, M.He, Y.Contzen, J.Kuhn, B.Benz, J.Schippers, M.Paul, J.Leibrock, L.Collin, L.Wittwer, M.Topp, A.O'Hara, F.Heer, D.Hochstrasser, R.Blaising, J.von Kries, J.P.Mu, L.van der Stelt, M.Mergenthaler, P.Lipstein, N.Grether, U.Nazare, M.

(2025) J Am Chem Soc 147: 10188-10202

  • DOI: https://doi.org/10.1021/jacs.4c15223
  • Primary Citation of Related Structures:  
    8RVF

  • PubMed Abstract: 

    Monoacylglycerol lipase (MAGL) is the pivotal catabolic enzyme responsible for signal termination in the endocannabinoid system. Inhibition of MAGL offers unique advantages over the direct activation of cannabinoid receptors in treating cancer, metabolic disorders, and inflammatory diseases. Although specific fluorescent molecular imaging probes are commonly used for the real-time analysis of the localization and distribution of drug targets in cells, they are almost invariably composed of a linker connecting the pharmacophore with a large fluorophore. In this study, we have developed miniaturized fluorescent probes targeting MAGL by incorporating a highly fluorescent boron-dipyrromethene (BODIPY) moiety into the inhibitor structure that interacts with the MAGL active site. These miniaturized fluorescent probes exhibit favorable drug-like properties such as high solubility and permeability, picomolar potency for MAGL across various species, and high cell selectivity and specificity. A range of translational investigations were conducted, including cell-free fluorescence polarization assays, fluorescence-activated cell sorting analysis, and confocal fluorescence microscopy of live cancer cells, live primary neurons, and human-induced pluripotent stem cell-derived brain organoids. Furthermore, the application of red-shifted analogs or 18 F positron emission labeling illustrated the significant versatility and adaptability of the fluorescent ligands in various experimental contexts.


  • Organizational Affiliation
    • Leibniz Forschungsinstitut für Molekulare Pharmakologie, Campus Berlin-Buch, 13125 Berlin, Germany.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Monoglyceride lipase323Homo sapiensMutation(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 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ99685
Sequence Annotations
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  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.43 Å
  • R-Value Free:  0.222 (Depositor), 0.216 (DCC) 
  • R-Value Work:  0.194 (Depositor), 0.188 (DCC) 
  • R-Value Observed: 0.195 (Depositor) 
Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 90.446α = 90
b = 127.312β = 90
c = 62.845γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
XDSdata reduction
SADABSdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2025-02-12
    Type: Initial release
  • Version 1.1: 2025-04-02
    Changes: Database references
  • Version 1.2: 2025-04-09
    Changes: Database references