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 …

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 …

Recent advances and challenges in experiment-oriented polymer informatics

K Hatakeyama-Sato - Polymer Journal, 2023 - nature.com
This review summarizes recent advances in experimental polymer chemistry supported by
data science. The area of polymer informatics is rapidly growing based on cheminformatics …

RCSB Protein Data Bank: Celebrating 50 years of the PDB with new tools for understanding and visualizing biological macromolecules in 3D

SK Burley, C Bhikadiya, C Bi, S Bittrich, L Chen… - Protein …, 2022 - Wiley Online Library
Abstract The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB
PDB), funded by the US National Science Foundation, National Institutes of Health, and …

Updated resources for exploring experimentally-determined PDB structures and Computed Structure Models at the RCSB Protein Data Bank

SK Burley, R Bhatt, C Bhikadiya, C Bi… - Nucleic Acids …, 2025 - academic.oup.com
Abstract The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB
PDB, RCSB. org), the US Worldwide Protein Data Bank (wwPDB, wwPDB. org) data center …

The Nucleic Acid Knowledgebase: a new portal for 3D structural information about nucleic acids

CL Lawson, HM Berman, L Chen, B Vallat… - Nucleic acids …, 2024 - academic.oup.com
Abstract The Nucleic Acid Knowledgebase (nakb. org) is a new data resource, updated
weekly, for experimentally determined 3D structures containing DNA and/or RNA nucleic …

Extension of the D3 and D4 London dispersion corrections to the full actinides series

L Wittmann, I Gordiy, M Friede… - Physical Chemistry …, 2024 - pubs.rsc.org
Efficient dispersion corrections are an indispensable component of modern density
functional theory, semi-empirical quantum mechanical, and even force field methods. In this …

AlphaFold 3–Aided Design of DNA Motifs To Assemble into Triangles

Anusha, Z Zhang, J Li, H Zuo… - Journal of the American …, 2024 - ACS Publications
Self-assembly of biomolecules provides a powerful tool for a wide range of applications in
nanomedicine, biosensing and imaging, vaccines, computation, nanophotonics, etc. The key …

A roadmap for the functional annotation of protein families: a community perspective

V de Crécy-Lagard, R Amorin de Hegedus, C Arighi… - 2022 - academic.oup.com
Over the last 25 years, biology has entered the genomic era and is becoming a science of
'big data'. Most interpretations of genomic analyses rely on accurate functional annotations …

Artificial intelligence in fusion protein three‐dimensional structure prediction: Review and perspective

H Kumar, P Kim - Clinical and Translational Medicine, 2024 - Wiley Online Library
Recent advancements in artificial intelligence (AI) have accelerated the prediction of
unknown protein structures. However, accurately predicting the three‐dimensional (3D) …