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Cationic porphyrins are tunable gatekeepers of the 20S proteasome (427 views) (PDF restricted 99 views)

Santoro AM, Cunsolo A, D'Urso A, Sbardella D, Tundo GR, Ciaccio C, Coletta M, Diana D, Fattorusso R, Persico M, Di Dato A, Fattorusso C, Milardi D, Purrello R

Chemical Science (ISSN: 2041-6539, 2041-6520), 2016; 7(2): 1286-1297.

The 20S proteasome is a barrel-shaped enzymatic assembly playing a critical role in proteome maintenance. Access of proteasome substrates to the catalytic chamber is finely regulated through gating mechanisms which involve aromatic and negatively charged residues located at the N-terminal tails of α subunits. However, despite the importance of gates in regulating proteasome function, up to now very few molecules have been shown to interfere with the equilibrium by which the catalytic channel exchanges between the open and closed states. In this light, and inspired by previous results evidencing the antiproteasome potential of cationic porphyrins, here we combine experimental (enzyme kinetics, UV stopped flow and NMR) and computational (bioinformatic analysis and docking studies) approaches to inspect proteasome inhibition by meso-tetrakis(4-N-methylpyridyl)-porphyrin (H2T4) and its two ortho- and meta-isomers. We show that in a first, fast binding event H2T4 accommodates in a pocket made of negatively charged and aromatic residues present in α1 (Asp10, Phe9), α3 (Tyr5), α5 (Asp9, Tyr8), α6 (Asp7, Tyr6) and α7 (Asp9, Tyr8) subunits thereby stabilizing the closed conformation. A second, slower binding mode involves interaction with the grooves which separate the α- from the β-rings. Of note, the proteasome inhibition by ortho- and meta-H2T4 decreases significantly if compared to the parent compound, thus underscoring the role played by spatial distribution of the four peripheral positive charges in regulating proteasome–ligand interactions. We think that our results may pave the way to further studies aimed at rationalizing the molecular basis of novel, and more sophisticated, proteasome regulatory mechanisms.

Affiliations ▼
*** IBB - CNR Affiliation

Istituto di Biostrutture e Bioimmagini – CNR UOS di Catania, Via P. Gaifami 18, 95126 Catania, Italy.

Dipartimento di Scienze Chimiche, Università di Catania, Viale Andrea Doria 6, 95125 Catania, Italy.

Dipartimento di Farmacia Università di Napoli “Federico II”, Via D. Montesano, 49 I-80131 Napoli, Italy.

Details ▼
Impact factor: 8.668, 5-year impact factor: 8.733

Paper type: Journal Article,

Keywords: Aromatic Compounds, Binding Energy, Bioinformatics, Enzyme Kinetics, Isomers, Porphyrins, Reconfigurable Hardware, Aromatic Residues, Bioinformatic Analysis, Catalytic Chambers, Cationic Porphyrin, Gating Mechanisms, Ligand Interactions, Negatively Charged, Regulatory Mechanism, Enzyme Inhibition,

Url: http://dx.doi.org/10.1039/C5SC03312H

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    * Structural analysis of BldR from Sulfolobus solfataricus provides insights into the molecular basis of transcriptional activation in Archaea by MarR family proteins (115 views)
    Di Fiore A, Fiorentino G, Vitale RM, Ronca R, Amodeo P, Pedone C, Bartolucci S, De Simone G
    J Mol Biol Journal Of Molecular Biology (ISSN: 1089-8638, 0022-2836, 1089-8638electronic), 2009 May 8; 388(3): 559-569.

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    * Carbonic anhydrase inhibitors: Binding of indanesulfonamides to the human isoform II (115 views)
    D'Ambrosio K, Masereel B, Thiry A, Scozzafava A, Supuran CT, De Simone G
    Chemmedchem (ISSN: 1860-7179, 1860-7187, 1860-7187electronic), 2008 Mar; 3(3): 473-477.

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    * Conformation analysis of aspartame-based sweeteners by NMR spectroscopy, molecular dynamics simulations, and X-ray diffraction studies (115 views)
    De Capua A, Goodman M, Amino Y, Saviano M, Benedetti E
    Chembiochem (ISSN: 1439-4227, 1439-7633, 1439-7633electronic), 2006 Feb; 7(2): 377-387.

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    * Structural features of the inactive and active states of the melanin-concentrating hormone receptors: Insights from molecular simulations (107 views)
    Vitale RM, Pedone C, De Benedetti PG, Fanelli F
    Proteins (ISSN: 0887-3585, 1097-0134, 1097-0134electronic), 2004 Sep 15; 56(3): 430-448.

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    8 Records (8 excluding Abstracts and Conferences).
    Total impact factor: 31.387 (31.387 excluding Abstracts and Conferences).
    Total 5-year impact factor: 30.307 (30.307 excluding Abstracts and Conferences).

    Your bibliography query: (([btitle, keywords, abstract] AROMATIC AND [btitle, keywords, abstract] COMPOUNDS AND [btitle, keywords, abstract] BINDING)) AND NOT [id] = 53183

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