8R1V

Pseudomonas aeruginosa FabF C164A in complex with N-(1,5-dimethyl-3-oxo-2-phenyl-2,3-dihydro-1H-pyrazol-4-yl)-2-(4-methoxyphenoxy)acetamide

Summary for 8R1V

• Entry DOI: 10.2210/pdb8r1v/pdb
• Related: 8R0I
• Descriptor: 3-oxoacyl-[acyl-carrier-protein] synthase 2, N-(1,5-dimethyl-3-oxo-2-phenyl-2,3-dihydro-1H-pyrazol-4-yl)-2-(4-methoxyphenoxy)acetamide, DIMETHYL SULFOXIDE, ... (5 entities in total)
• Functional Keywords: inhibitor, protein-ligand complex, fabf, transferase
• Biological source: Pseudomonas aeruginosa
• Total number of polymer chains: 2
• Total formula weight: 89206.23

Authors

Yadrykhinsky, V.,Brenk, R. (deposition date: 2023-11-02, release date: 2024-03-06, Last modification date: 2024-05-08)

Primary citation

Jalencas, X.,Berg, H.,Espeland, L.O.,Sreeramulu, S.,Kinnen, F.,Richter, C.,Georgiou, C.,Yadrykhinsky, V.,Specker, E.,Jaudzems, K.,Miletic, T.,Harmel, R.,Gribbon, P.,Schwalbe, H.,Brenk, R.,Jirgensons, A.,Zaliani, A.,Mestres, J.
Design, quality and validation of the EU-OPENSCREEN fragment library poised to a high-throughput screening collection.
Rsc Med Chem, 15:1176-1188, 2024

PubMed Abstract: The EU-OPENSCREEN (EU-OS) European Research Infrastructure Consortium (ERIC) is a multinational, not-for-profit initiative that integrates high-capacity screening platforms and chemistry groups across Europe to facilitate research in chemical biology and early drug discovery. Over the years, the EU-OS has assembled a high-throughput screening compound collection, the European Chemical Biology Library (ECBL), that contains approximately 100 000 commercially available small molecules and a growing number of thousands of academic compounds crowdsourced through our network of European and non-European chemists. As an extension of the ECBL, here we describe the computational design, quality control and use case screenings of the European Fragment Screening Library (EFSL) composed of 1056 mini and small chemical fragments selected from a substructure analysis of the ECBL. Access to the EFSL is open to researchers from both academia and industry. Using EFSL, eight fragment screening campaigns using different structural and biophysical methods have successfully identified fragment hits in the last two years. As one of the highlighted projects for antibiotics, we describe the screening by Bio-Layer Interferometry (BLI) of the EFSL, the identification of a 35 μM fragment hit targeting the beta-ketoacyl-ACP synthase 2 (FabF), its binding confirmation to the protein by X-ray crystallography (PDB 8PJ0), its subsequent rapid exploration of its surrounding chemical space through hit-picking of ECBL compounds that contain the fragment hit as a core substructure, and the final binding confirmation of two follow-up hits by X-ray crystallography (PDB 8R0I and 8R1V).

PubMed: 38665834
DOI: 10.1039/d3md00724c

Experimental method

X-RAY DIFFRACTION (2.087 Å)