Structural Basis for the Species-Selective Binding of N,C-Capped Dipeptides to the Mycobacterium tuberculosis Proteasome

Journal Article · Tue Dec 27 04:00:00 EST 2016 · Biochemistry

DOI:https://doi.org/10.1021/acs.biochem.6b01107· OSTI ID:1409607

Hsu, Hao-Chi ^[1]; Singh, Pradeep K.; Fan, Hao; Wang, Rong ^[2]; Sukenick, George ^[2]; Nathan, Carl; Lin, Gang; Li, Huilin ^[1]

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1. Van Andel Research Institute, Grand Rapids, Michigan 49503, United States
2. NMR Analytical Core Facility, Memorial Sloan Kettering Cancer Center, New York, New York 10065, United States

The Mycobacterium tuberculosis (Mtb) 20S proteasome is vital for the pathogen to survive under nitrosative stress in vitro and to persist in mice. To qualify for drug development, inhibitors targeting Mtb 20S must spare both the human constitutive proteasome (c-20S) and immunoproteasome (i-20S). We recently reported members of a family of noncovalently binding dipeptide proteasome inhibitors that are highly potent and selective for Mtb 20S over human c-20S and i-20S. To understand the structural basis of their potency and selectivity, we have studied the structure–activity relationship of six derivatives and solved their cocrystal structures with Mtb 20S. The dipeptide inhibitors form an antiparallel β-strand with the active site β-strands. Selectivity is conferred by several features of Mtb 20S relative to its mouse counterparts, including a larger S1 pocket, additional hydrogen bonds in the S3 pocket, and hydrophobic interactions in the S4 pocket. Serine-20 and glutamine-22 of Mtb 20S interact with the dipeptides and confer Mtb-specific inhibition over c-20S and i-20S. The Mtb 20S and mammalian i-20S have a serine-27 that interacts strongly with the dipeptides, potentially explaining the higher inhibitory activity of the dipeptides toward i-20S over c-20S. This detailed structural knowledge will aid in optimizing the dipeptides as anti-tuberculosis drugs.

• Research Organization: Brookhaven National Laboratory (BNL), Upton, NY (United States)
• Sponsoring Organization: USDOE Office of Science (SC), Basic Energy Sciences (BES) (SC-22)
• DOE Contract Number: SC0012704
• OSTI ID: 1409607
• Report Number(s): BNL--114659-2017-JA¿¿¿
• Journal Information: Biochemistry, Journal Name: Biochemistry Journal Issue: 1 Vol. 56; ISSN 0006-2960
• Publisher: American Chemical Society (ACS)
• Country of Publication: United States
• Language: English

Related Subjects

59 BASIC BIOLOGICAL SCIENCES