Protein crystallization remains a serious bottleneck to structure determination by X-ray diffraction methods. Compounds acting as "molecular glue" provide a promising strategy to overcome this bottleneck. Such molecules interact via noncovalent bonds with two or more protein surfaces to promote lattice formation. Here, we report a 1.5 Å resolution crystal structure of lysine-rich cytochrome c complexed with p-phosphonatomethyl-calix[4]arene (pmclx4). Evidence for complex formation in solution was provided by NMR studies. Similar to p-sulfonato-calix[4]arene (sclx4), the cavity of pmclx4entrapped a single lysine side chain. Interesting features of protein recognition by the phosphonate substituents were identified in the crystal structure. A new calixarene binding site was identified at Lys54. The electron density at this site indicated two distinct calixarene conformers, suggesting a degree of ligand mobility. The role of pmclx4in protein crystal packing (molecular glue and patchy particle model) as well as differences in protein-binding with respect to sclx4are discussed.

Phosphonated Calixarene as a "Molecular Glue" for Protein Crystallization / Alex, Jimi M.; Rennie, Martin L.; Volpi, Stefano; Sansone, Francesco; Casnati, Alessandro; Crowley, Peter B.. - In: CRYSTAL GROWTH & DESIGN. - ISSN 1528-7483. - 18:4(2018), pp. 2467-2473. [10.1021/acs.cgd.8b00092]

Phosphonated Calixarene as a "Molecular Glue" for Protein Crystallization

Volpi, Stefano;Sansone, Francesco;Casnati, Alessandro;
2018-01-01

Abstract

Protein crystallization remains a serious bottleneck to structure determination by X-ray diffraction methods. Compounds acting as "molecular glue" provide a promising strategy to overcome this bottleneck. Such molecules interact via noncovalent bonds with two or more protein surfaces to promote lattice formation. Here, we report a 1.5 Å resolution crystal structure of lysine-rich cytochrome c complexed with p-phosphonatomethyl-calix[4]arene (pmclx4). Evidence for complex formation in solution was provided by NMR studies. Similar to p-sulfonato-calix[4]arene (sclx4), the cavity of pmclx4entrapped a single lysine side chain. Interesting features of protein recognition by the phosphonate substituents were identified in the crystal structure. A new calixarene binding site was identified at Lys54. The electron density at this site indicated two distinct calixarene conformers, suggesting a degree of ligand mobility. The role of pmclx4in protein crystal packing (molecular glue and patchy particle model) as well as differences in protein-binding with respect to sclx4are discussed.
Phosphonated Calixarene as a "Molecular Glue" for Protein Crystallization / Alex, Jimi M.; Rennie, Martin L.; Volpi, Stefano; Sansone, Francesco; Casnati, Alessandro; Crowley, Peter B.. - In: CRYSTAL GROWTH & DESIGN. - ISSN 1528-7483. - 18:4(2018), pp. 2467-2473. [10.1021/acs.cgd.8b00092]
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/11381/2855062
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