Results 1 to 10 of about 381,553 (352)

Assessing PDB macromolecular crystal structure confidence at the individual amino acid residue level

Structure, 2022
Approximately 87% of the more than 190,000 atomic-level, (three-dimensional) 3D biostructures in the Protein Data Bank (PDB) were determined using macromolecular crystallography (MX). Agreement between 3D atomic coordinates and experimental data for >100
Chenghua Shao, Stephen K Burley, Sebastian Bittrich   +2 more
exaly   +2 more sources

pdb-tools: a swiss army knife for molecular structures [version 1; referees: 2 approved]

F1000Research, 2018
The pdb-tools are a collection of Python scripts for working with molecular structure data in the Protein Data Bank (PDB) format. They allow users to edit, convert, and validate PDB files, from the command-line, in a simple but efficient manner.
João P. G. L. M. Rodrigues, João M.C. Teixeira, Mikaël Trellet, Alexandre M. J. J. Bonvin   +3 more
doaj   +2 more sources

CHARMM-GUI PDB Manipulator: Various PDB Structural Modifications for Biomolecular Modeling and Simulation

Journal of Molecular Biology, 2023
Molecular modeling and simulation play important roles in biomedical research as they provide molecular-level insight into the underlying mechanisms of biological functions that are difficult to elucidate only with experiments. CHARMM-GUI (https://charmm-
Sang-Jun Park, Nathan R. Kern, Turner P. Brown, Ju-Min Lee, W. Im   +4 more
semanticscholar   +3 more sources

OneDep: Unified wwPDB System for Deposition, Biocuration, and Validation of Macromolecular Structures in the PDB Archive

Structure, 2017
SUMMARY OneDep, a unified system for deposition, biocuration, and validation of experimentally determined structures of biological macromolecules to the Protein Data Bank (PDB) archive, has been developed as a global collaboration by the Worldwide ...
Brian P Hudson, Aleksandras Gutmanas, Haruki Nakamura   +2 more
exaly   +2 more sources

Comparative Stability Study of Polysorbate 20 and Polysorbate 80 Related to Oxidative Degradation

Pharmaceutics, 2023
The surfactants polysorbate 20 (PS20) and polysorbate 80 (PS80) are utilized to stabilize protein drugs. However, concerns have been raised regarding the degradation of PSs in biologics and the potential impact on product quality.
Benedykt Kozuch, Johanna Weber, Julia Buske, Karsten Mäder, Patrick Garidel, Tim Diederichs   +5 more
doaj   +1 more source

Antimicrobial Preservatives for Protein and Peptide Formulations: An Overview

Pharmaceutics, 2023
Biological drugs intended for multi-dose application require the presence of antimicrobial preservatives to avoid microbial growth. As the presence of certain preservatives has been reported to increase protein and peptide particle formation, it is ...
Luisa Stroppel, Torsten Schultz-Fademrecht, Martin Cebulla, Michaela Blech, Richard J. Marhöfer, Paul M. Selzer, Patrick Garidel   +6 more
doaj   +1 more source

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

Nucleic Acids Res., 2022
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 for the open-access PDB archive. As wwPDB-designated Archive Keeper, RCSB PDB is also
S. Burley, Charmi Bhikadiya, Chunxiao Bi, Sebastian Bittrich, Henry Chao, Li Chen, Paul A. Craig, G. Crichlow, K. Dalenberg, Jose M. Duarte, S. Dutta, M. Fayazi, Zu-Kang Feng, J. Flatt, S. Ganesan, Sutapa Ghosh, D. Goodsell, R. K. Green, Vladimir Guranovic, Jeremy Henry, B. Hudson, Igor Khokhriakov, C. Lawson, Yuhe Liang, Robert Lowe, E. Peisach, Irina Persikova, Dennis W. Piehl, Yana Rose, A. Sali, J. Segura, Monica R. Sekharan, C. Shao, Brinda K. Vallat, Maria Voigt, Ben M. Webb, J. Westbrook, S. Whetstone, Jasmine Y. Young, Arthur O. Zalevsky, C. Zardecki   +40 more
semanticscholar   +1 more source

Produk Domestik Bruto dan Kurs Sebagai Determinan Impor Pupuk Indonesia

Sorot, 2021
Impor pupuk dilakukan untuk memenuhi kebutuhan kebutuhan pupuk. Penelitian ini bertujuan untuk menganalisis pengaruh PDB dan nilai tukar sebagai determinan impor pupuk di Indonesia.
Mardiana Mardiana, Siti Nelva Anisa, Darma Yuda   +2 more
doaj   +1 more source

PENGUJIAN EKSISTENSI ENVIRONMENTAL KUZNETS CURVE DI INDONESIA

Jurnal Lebesgue, 2021
Tujuan studi adalah untuk menguji eksistensi fenomena environmental Kuznets Curve (EKC). Metode yang digunakan dalam  penelitian ini adalah metode regresi kuadratik yng diestimasi dengan ordinary least square dengan terlebih dahulu merekonstruksi varibel
Muhammad Fajar, Hariyanto
doaj   +1 more source

RCSB Protein Data Bank: Efficient Searching and Simultaneous Access to One Million Computed Structure Models Alongside the PDB Structures Enabled by Architectural Advances

Journal of Molecular Biology, 2023
The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) provides open access to experimentally-determined three-dimensional (3D) structures of biomolecules.
Sebastian Bittrich, Charmi Bhikadiya, Chunxiao Bi, Henry Chao, Jose M. Duarte, S. Dutta, M. Fayazi, Jeremy Henry, Igor Khokhriakov, Robert Lowe, Dennis W. Piehl, J. Segura, Brinda K. Vallat, Maria Voigt, J. Westbrook, S. Burley, Yana Rose   +16 more
semanticscholar   +1 more source