9c98

From Proteopedia

Yeast 20S proteasome soaked with isolated TMC-86A

Structural highlights

9c98 is a 20 chain structure with sequence from Saccharomyces cerevisiae. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 3.04Å
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

PSA2_YEAST The proteasome degrades poly-ubiquitinated proteins in the cytoplasm and in the nucleus. It is essential for the regulated turnover of proteins and for the removal of misfolded proteins. The proteasome is a multicatalytic proteinase complex that is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. It has an ATP-dependent proteolytic activity.

Publication Abstract from PubMed

Nature is a rich and largely untapped reservoir of small molecules, the latter historically being the main source of new drugs. Three-dimensional structures of proteins in complex with small-molecule ligands represent key information to progress drug-discovery projects, in particular in the hit-to-lead phase. High-throughput crystallography has been of extensive use in recent years, especially to obtain crystallographic complexes of synthetic ligands and fragments. However, the process of discovering novel bioactive natural products has experienced limitations that have long prevented large drug-discovery programs using this outstanding source of molecules. Recent technologies have contributed to the re-emergence of natural products in modern drug discovery. We present the use of high-throughput protein crystallography to directly capture bioactive natural products from unpurified biota chemical samples using protein crystals. These routines, which are currently in use at the Brazilian Centre for Research in Energy and Materials (CNPEM), are introduced with a description of crystal preparation, automated data collection and processing at the MANACA beamline (Sirius, LNLS, CNPEM), along with case examples of bioactive natural product capture using protein crystals. The usefulness of this pipeline, which accelerates the discovery and structural elucidation of both known and previously unknown bioactive natural products, paves the way for the development of innovative therapeutic agents, thus contributing to the new era of natural product-based drug discovery.

High-throughput protein crystallography to empower natural product-based drug discovery.,Meneghello R, Rustiguel JK, de Araujo EA, de Felicio R, Fernandes AZN, Ferreira ELF, Gubiani JR, Takeda AAS, Araujo A, de Lima Silva CC, Bertonha AF, Urano RPM, Trindade DM, Cunha TM, Cardoso AC, Berlinck RGS, Nascimento AFZ, Trivella DBB Acta Crystallogr F Struct Biol Commun. 2025 May 1;81(Pt 5):179-192. doi: , 10.1107/S2053230X25001542. Epub 2025 Apr 16. PMID:40237633^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Meneghello R, Rustiguel JK, de Araújo EA, de Felício R, Fernandes AZN, Ferreira ELF, Gubiani JR, Takeda AAS, Araujo A, de Lima Silva CC, Bertonha AF, Urano RPM, Trindade DM, Cunha TM, Cardoso AC, Berlinck RGS, Nascimento AFZ, Trivella DBB. High-throughput protein crystallography to empower natural product-based drug discovery. Acta Crystallogr F Struct Biol Commun. 2025 May 1;81(Pt 5):179-192. PMID:40237633 doi:10.1107/S2053230X25001542