Co-crystallization and structure determination: An effective direction for anti-SARS-CoV-2 drug discovery

Autor: Xian-En Zhao, Liyan Yang, Zhonglei Wang
Jazyk: angličtina
Rok vydání: 2021
Předmět:
IC50
half maximal inhibitory concentration

Review
Biochemistry
SI
selectivity index

Structural Biology
cryo-EM
cryo-electron microscopy

media_common
COVID-19
coronavirus disease 2019

MMPBSA
molecular mechanics Poisson-Boltzmann surface area

MTase
methyltransferase

Natural products
PLpro
papain-like protease

Drug discovery
Chemistry
DyKAT
dynamic kinetic asymmetric transformation

MERS-CoV
Middle East respiratory syndrome coronavirus

SAM
S-adenosylmethionine

Ligand (biochemistry)
MD
molecular dynamics

Computer Science Applications
EC50
half maximal effective concentration

EBOV
Ebola virus

HCoV-229E
human coronavirus 229E

Biotechnology
Drug
2019-20 coronavirus outbreak
3CLpro
3C-Like protease

FDA-approved drugs
Coronavirus disease 2019 (COVID-19)
media_common.quotation_subject
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
Highly pathogenic
SARS-CoV
severe acute respiratory syndrome coronavirus

Biophysics
Ugi-4CR
Ugi four-component reaction

Computational biology
ACE2
angiotensin-converting enzyme 2

SARS-CoV-2
severe acute respiratory syndrome coronavirus 2

EMD
Electron Microscopy Data

PDB
Protein Data Bank

Co-crystal structures
Genetics
RdRp
RNA-dependent RNA polymerase

Nsp
nonstructural protein

ComputingMethodologies_COMPUTERGRAPHICS
Candidate drugs
RTP
ribonucleoside triphosphate

SARS-CoV-2
FDA
U.S. Food and Drug Administration

Mpro
main protease

HPLC
high-performance liquid chromatography

TP248.13-248.65
Zdroj: Computational and Structural Biotechnology Journal, Vol 19, Iss, Pp 4684-4701 (2021)
Computational and Structural Biotechnology Journal
ISSN: 2001-0370
Popis: Graphical abstract
Safer and more-effective drugs are urgently needed to counter infections with the highly pathogenic SARS-CoV-2, cause of the COVID-19 pandemic. Identification of efficient inhibitors to treat and prevent SARS-CoV-2 infection is a predominant focus. Encouragingly, using X-ray crystal structures of therapeutically relevant drug targets (PLpro, Mpro, RdRp, and S glycoprotein) offers a valuable direction for anti–SARS-CoV-2 drug discovery and lead optimization through direct visualization of interactions. Computational analyses based primarily on MMPBSA calculations have also been proposed for assessing the binding stability of biomolecular structures involving the ligand and receptor. In this study, we focused on state-of-the-art X-ray co-crystal structures of the abovementioned targets complexed with newly identified small-molecule inhibitors (natural products, FDA-approved drugs, candidate drugs, and their analogues) with the assistance of computational analyses to support the precision design and screening of anti–SARS-CoV-2 drugs.
Databáze: OpenAIRE