ArticleNucleic acids research2015
BetaCavityWeb: a webserver for molecular voids and channels.
Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed.
- Genome-wide identification and analysis of expression of pathogenesis-related protein 1 (PR-1) gene family in brown algae.Frontiers in plant science · 2025Article
- Identification and characterization of sulphotransferase (SOT) genes for tolerance against drought and heat in wheat and six related species.Molecular biology reports · 2024Article
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- LifeSoaks: a tool for analyzing solvent channels in protein crystals and obstacles for soaking experiments.Acta crystallographica. Section D, Structural biology · 2023Article
- Large language models generate functional protein sequences across diverse families.Nature biotechnology · 2023Article
- Genome-Wide Identification and Expression Profiling of Pathogenesis-Related Protein 1 (Plants (Basel, Switzerland) · 2023Article
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- Self-Assembly of a Purely Organic Bowl in Water via Acylhydrazone Formation.Molecules (Basel, Switzerland) · 2023Article
- Structure and activity of a thermally stable mutant of Acanthamoeba actophorin.Acta crystallographica. Section F, Structural biology communications · 2022Article
- Investigation and Computational Analysis of the Sulfotransferase (SOT) Gene Family in Potato (Plants (Basel, Switzerland) · 2021Article
- Genomic expansion of Aldh1a1 protects beavers against high metabolic aldehydes from lipid oxidation.Cell reports · 2021Article
- Genome-wide comparative analysis of Mg transporter gene family between Triticum turgidum and Camelina sativa.Biometals : an international journal on the role of metal ions in biology, biochemistry, and medicine · 2021Article
- Bioluminescent Multi-Characteristic Opsin for Simultaneous Optical Stimulation and Continuous Monitoring of Cortical Activities.Frontiers in cellular neuroscience · 2021Article
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- Molecular Cavity Topological Representation for Pattern Analysis: A NLP Analogy-Based Word2Vec Method.International journal of molecular sciences · 2019Article
- Caver Web 1.0: identification of tunnels and channels in proteins and analysis of ligand transport.Nucleic acids research · 2019Article
- Identification of O-acetylserine(thiol)lyase (OASTL) genes in sorghum (Sorghum bicolor) and gene expression analysis under cadmium stress.Molecular biology reports · 2019Article
- The FtsLB subcomplex of the bacterial divisome is a tetramer with an uninterrupted FtsL helix linking the transmembrane and periplasmic regions.The Journal of biological chemistry · 2018Article
- The crystal structure of the Yersinia pestis iron chaperone YiuA reveals a basic triad binding motif for the chelated metal.Acta crystallographica. Section D, Structural biology · 2017Article
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Molecular cavities, which include voids and channels, are critical for molecular function. We present a webserver, BetaCavityWeb, which computes these cavities for a given molecular structure and a given spherical probe, and reports their geometrical properties: volume, boundary area, buried area, etc. The server's algorithms are based on the Voronoi diagram of atoms and its derivative construct: the beta-complex. The correctness of the computed result and computational efficiency are both mathematically guaranteed. BetaCavityWeb is freely accessible at the Voronoi Diagram Research Center (VDRC) (http://voronoi.hanyang.ac.kr/betacavityweb).
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