AlphaFold2 can predict single-mutation effects

JM McBride, K Polev, A Abdirasulov, V Reinharz… - Physical Review Letters, 2023 - APS
AlphaFold2 (AF) is a promising tool, but is it accurate enough to predict single mutation
effects? Here, we report that the localized structural deformation between protein pairs …

[PDF][PDF] 20 years of crystal hits: progress and promise in ultrahigh-throughput crystallization screening

ML Lynch, ME Snell, SA Potter, EH Snell… - … Section D: Structural …, 2023 - journals.iucr.org
Diffraction-based structural methods contribute a large fraction of the biomolecular structural
models available, providing a critical understanding of macromolecular architecture. These …

[PDF][PDF] IceBear: an intuitive and versatile web application for research-data tracking from crystallization experiment to PDB deposition

E Daniel, MM Maksimainen, N Smith… - … Section D: Structural …, 2021 - journals.iucr.org
The web-based IceBear software is a versatile tool to monitor the results of crystallization
experiments and is designed to facilitate supervisor and student communications. It also …

Graphene quantum dots as nucleants for protein crystallization

MS Kang, G Lee, K Jang, DW Jeong… - Crystal Growth & …, 2021 - ACS Publications
Structural analysis of proteins using X-ray crystallography is crucial for discovering their
biochemical functionalities. However, growing X-ray-quality crystals of proteins is often a …

AlphaFold2 can predict single-mutation effects

JM McBride, K Polev, A Abdirasulov, V Reinharz… - bioRxiv, 2022 - biorxiv.org
AlphaFold2 (AF) is a promising tool, but is it accurate enough to predict single mutation
effects? Here, we report that the localized structural deformation between protein pairs …

High-throughput screening to obtain crystal hits for protein crystallography

GR Budziszewski, ME Snell, TR Wright… - JoVE (Journal of …, 2023 - app.jove.com
X-ray crystallography is the most commonly employed technique to discern macromolecular
structures, but the crucial step of crystallizing a protein into an ordered lattice amenable to …

[PDF][PDF] AlphaFold2 can predict structural and phenotypic effects of single mutations

JM McBride, K Polev, V Reinharz, BA Grzybowski… - bioRxiv, 2022 - scholar.archive.org
AlphaFold2 (AF2) is a promising tool for structural biology, but is it sufficiently accurate to
predict the effect of missense mutations? We find that structural variation between closely …

Polo: an open‐source graphical user interface for crystallization screening

ET Holleman, E Duguid, LJ Keefe… - Journal of applied …, 2021 - Wiley Online Library
Polo is a Python‐based graphical user interface designed to streamline viewing and
analysis of images to monitor crystal growth, with a specific target to enable users of the …

Biological data sources for advancements in systems biology

JK Choudhari, A Gupta, S Bhatt, S Kurmi… - Systems Biology and In …, 2025 - Elsevier
Biological data sources are important in several scientific fields, such as bioinformatics,
systems biology, and genomics. Biological sources have played an essential role in …

Data-and diversity-driven development of a Shotgun crystallization screen using the Protein Data Bank

G Abrahams, J Newman - Acta Crystallographica Section D …, 2021 - journals.iucr.org
Protein crystallization has for decades been a critical and restrictive step in macromolecular
structure determination via X-ray diffraction. Crystallization typically involves a multi-stage …