Protein data bank: a comprehensive review of 3D structure holdings and worldwide utilization by researchers, educators, and students

SK Burley, HM Berman, JM Duarte, Z Feng, JW Flatt… - Biomolecules, 2022 - mdpi.com
The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB),
funded by the United States National Science Foundation, National Institutes of Health, and …

Revolutionizing medicinal chemistry: the application of artificial intelligence (AI) in early drug discovery

R Han, H Yoon, G Kim, H Lee, Y Lee - Pharmaceuticals, 2023 - mdpi.com
Artificial intelligence (AI) has permeated various sectors, including the pharmaceutical
industry and research, where it has been utilized to efficiently identify new chemical entities …

RCSB Protein Data Bank (RCSB. org): delivery of experimentally-determined PDB structures alongside one million computed structure models of proteins from …

SK Burley, C Bhikadiya, C Bi, S Bittrich… - Nucleic acids …, 2023 - academic.oup.com
Abstract The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB
PDB), founding member of the Worldwide Protein Data Bank (wwPDB), is the US data center …

Biological magnetic resonance data bank

JC Hoch, K Baskaran, H Burr, J Chin… - Nucleic acids …, 2023 - academic.oup.com
Abstract The Biological Magnetic Resonance Data Bank (BMRB, https://bmrb. io) is the
international open data repository for biomolecular nuclear magnetic resonance (NMR) …

The genomic landscape of 2,023 colorectal cancers

AJ Cornish, AJ Gruber, B Kinnersley, D Chubb… - Nature, 2024 - nature.com
Colorectal carcinoma (CRC) is a common cause of mortality, but a comprehensive
description of its genomic landscape is lacking,,,,,,–. Here we perform whole-genome …

On the frustration to predict binding affinities from protein–ligand structures with deep neural networks

M Volkov, JA Turk, N Drizard, N Martin… - Journal of medicinal …, 2022 - ACS Publications
Accurate prediction of binding affinities from protein–ligand atomic coordinates remains a
major challenge in early stages of drug discovery. Using modular message passing graph …

PDB‐101: Educational resources supporting molecular explorations through biology and medicine

C Zardecki, S Dutta, DS Goodsell, R Lowe… - Protein …, 2022 - Wiley Online Library
Abstract The Protein Data Bank (PDB) archive is a rich source of information in the form of
atomic‐level three‐dimensional (3D) structures of biomolecules experimentally determined …

RCSB protein data bank: efficient searching and simultaneous access to one million computed structure models alongside the PDB structures enabled by architectural …

S Bittrich, C Bhikadiya, C Bi, H Chao, JM Duarte… - Journal of molecular …, 2023 - Elsevier
Abstract The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB
PDB) provides open access to experimentally-determined three-dimensional (3D) structures …

Antimalarial drug discovery against malaria parasites through haplopine modification: an advanced computational approach

S Akash, G Abdelkrim, I Bayil, ME Hosen… - Journal of Cellular …, 2023 - Wiley Online Library
The widespread emergence of antimalarial drug resistance has created a major threat to
public health. Malaria is a life‐threatening infectious disease caused by Plasmodium spp …

PDBx/mmCIF ecosystem: foundational semantic tools for structural biology

JD Westbrook, JY Young, C Shao, Z Feng… - Journal of molecular …, 2022 - Elsevier
Abstract PDBx/mmCIF, Protein Data Bank Exchange (PDBx) macromolecular
Crystallographic Information Framework (mmCIF), has become the data standard for …