Nitrite oxidation in wastewater treatment: microbial adaptation and suppression challenges
Microbial nitrite oxidation is the primary pathway that generates nitrate in wastewater
treatment systems and can be performed by a variety of microbes: namely, nitrite-oxidizing …
treatment systems and can be performed by a variety of microbes: namely, nitrite-oxidizing …
Opportunities and challenges for machine learning-assisted enzyme engineering
Enzymes can be engineered at the level of their amino acid sequences to optimize key
properties such as expression, stability, substrate range, and catalytic efficiency─ or even to …
properties such as expression, stability, substrate range, and catalytic efficiency─ or even to …
UCSF ChimeraX: Tools for structure building and analysis
EC Meng, TD Goddard, EF Pettersen… - Protein …, 2023 - Wiley Online Library
Advances in computational tools for atomic model building are leading to accurate models of
large molecular assemblies seen in electron microscopy, often at challenging resolutions of …
large molecular assemblies seen in electron microscopy, often at challenging resolutions of …
[HTML][HTML] Mechanisms of antigen escape from BCMA-or GPRC5D-targeted immunotherapies in multiple myeloma
H Lee, S Ahn, R Maity, N Leblay, B Ziccheddu… - Nature medicine, 2023 - nature.com
B cell maturation antigen (BCMA) target loss is considered to be a rare event that mediates
multiple myeloma (MM) resistance to anti-BCMA chimeric antigen receptor T cell (CAR T) or …
multiple myeloma (MM) resistance to anti-BCMA chimeric antigen receptor T cell (CAR T) or …
Generalized biomolecular modeling and design with RoseTTAFold All-Atom
Deep-learning methods have revolutionized protein structure prediction and design but are
presently limited to protein-only systems. We describe RoseTTAFold All-Atom (RFAA), which …
presently limited to protein-only systems. We describe RoseTTAFold All-Atom (RFAA), which …
TTD: Therapeutic Target Database describing target druggability information
Y Zhou, Y Zhang, D Zhao, X Yu, X Shen… - Nucleic acids …, 2024 - academic.oup.com
Target discovery is one of the essential steps in modern drug development, and the
identification of promising targets is fundamental for developing first-in-class drug. A variety …
identification of promising targets is fundamental for developing first-in-class drug. A variety …
AlphaFold Protein Structure Database in 2024: providing structure coverage for over 214 million protein sequences
M Varadi, D Bertoni, P Magana, U Paramval… - Nucleic acids …, 2024 - academic.oup.com
Abstract The AlphaFold Database Protein Structure Database (AlphaFold DB,
https://alphafold. ebi. ac. uk) has significantly impacted structural biology by amassing over …
https://alphafold. ebi. ac. uk) has significantly impacted structural biology by amassing over …
Using evolutionary data to make sense of macromolecules with a “face‐lifted” ConSurf
B Yariv, E Yariv, A Kessel, G Masrati, AB Chorin… - Protein …, 2023 - Wiley Online Library
The ConSurf web‐sever for the analysis of proteins, RNA, and DNA provides a quick and
accurate estimate of the per‐site evolutionary rate among homologues. The analysis reveals …
accurate estimate of the per‐site evolutionary rate among homologues. The analysis reveals …
The IUPHAR/BPS guide to PHARMACOLOGY in 2024
SD Harding, JF Armstrong, E Faccenda… - Nucleic acids …, 2024 - academic.oup.com
Abstract The IUPHAR/BPS Guide to PHARMACOLOGY (GtoPdb; https://www.
guidetopharmacology. org) is an open-access, expert-curated, online database that …
guidetopharmacology. org) is an open-access, expert-curated, online database that …
[HTML][HTML] A method for multiple-sequence-alignment-free protein structure prediction using a protein language model
Protein structure prediction pipelines based on artificial intelligence, such as AlphaFold2,
have achieved near-experimental accuracy. These advanced pipelines mainly rely on …
have achieved near-experimental accuracy. These advanced pipelines mainly rely on …