Results 281 to 290 of about 326,099 (315)

PDB@: An offline toolkit for exploration and analysis of PDB files

Journal of Structural and Functional Genomics, 2013
Protein Data Bank (PDB) is a freely accessible archive of the 3-D structural data of biological molecules. Structure based studies offers a unique vantage point in inferring the properties of a protein molecule from structural data. This is too big a task to be done manually.
Udayakumar, Mani, Sadhana, Ravisankar, Sai Mukund, Ramakrishnan   +2 more
openaire   +2 more sources

PDB-SQL

Proceedings of the 45th annual southeast regional conference, 2007
The Protein Data Bank (PDB) was established in 1971 as a repository for macromolecular crystal structure data. Recent development of high throughput structural genomic technologies has produced massive quantities of data, and the amount of macromolecular structure data is increasing exponentially.
Edward E. Pryor Jr., Jacquelyn S. Fetrow
openaire   +1 more source

Parallel PDB data retriever “PDB diving booster”

1997
A powerful PDB-data-retrieval system “PDB Diving Booster,” which is a collection of functions/methods for data-retrieval and datatransmission, will enhances high-performance parallel-distributed programming in the field of structural biology. This system provides with 1) functions for reading whatever irregular data in PDB file, 2) methods to access ...
Kentaro Onizuka, Tamotsu Noguchi, Minoru Saito, Yutaka Akiyama   +3 more
openaire   +1 more source

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-gui.org) is a web-based cyberinfrastructure that is widely used to generate various molecular ...
Sang-Jun Park, Nathan Kern, Turner Brown, Jumin Lee, Wonpil Im   +4 more
openaire   +2 more sources

Structural changes of homodimers in the PDB

Journal of Structural Biology, 2018
Protein complexes are involved in various biological phenomena. These complexes are intrinsically flexible, and structural changes are essential to their functions. To perform a large-scale automated analysis of the structural changes of complexes, we combined two original methods.
Ryotaro, Koike, Takayuki, Amemiya, Tatsuya, Horii, Motonori, Ota   +3 more
openaire   +2 more sources

PDB-REPRDB: a database of representative protein chains in PDB (Protein Data Bank).

Proceedings. International Conference on Intelligent Systems for Molecular Biology, 1997
We propose a novel set of 'representative' protein chains in PDB, where not only sequential but also structural similarities are taken into account. Hobohm et al. have already proposed "PDB_SELECT", which eliminates redundant chains based solely on sequence similarity.
Tamotsu Noguchi, Kentaro Onizuka, Yutaka Akiyama, Minoru Saito   +3 more
openaire   +2 more sources

From PDB files to protein features: a comparative analysis of PDB bind and STCRDAB datasets

Medical & Biological Engineering & Computing
Understanding protein structures is crucial for various bioinformatics research, including drug discovery, disease diagnosis, and evolutionary studies. Protein structure classification is a critical aspect of structural biology, where supervised machine learning algorithms classify structures based on data from databases such as Protein Data Bank (PDB).
Sarwan Ali, Prakash Chourasia, Murray Patterson   +2 more
openaire   +2 more sources

PlanarDopedBarrier (PDB) Diode

2010
This chapter contains sections titled: History Structure Characteristics Applications Related Device This chapter contains sections titled: References ]]>
openaire   +1 more source

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

Protein Science, 2022
Stephen K Burley, Chunxiao Bi, Sebastian Bittrich   +2 more
exaly  

PlanarDopedBarrier (PDB) Transistor

2010
This chapter contains sections titled: History Structure Characteristics Applications Related Device(s) This chapter contains sections titled ...
openaire   +1 more source