ArticleJournal of chemical theory and computation2015
Alchembed: A Computational Method for Incorporating Multiple Proteins into Complex Lipid Geometries.
Article in Journal of chemical theory and computation, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
29 citing papers in PubMed.
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- Prospective Evaluation of Structure-Based Simulations Reveal Their Ability to Predict the Impact of Kinase Mutations on Inhibitor Binding.The journal of physical chemistry. B · 2025Article
- Prospective evaluation of structure-based simulations reveal their ability to predict the impact of kinase mutations on inhibitor binding.bioRxiv : the preprint server for biology · 2025Article
- Article
- Predicting antibiotic resistance in complex protein targets using alchemical free energy methods.Journal of computational chemistry · 2022Article
- Assembly and Analysis of Cell-Scale Membrane Envelopes.Journal of chemical information and modeling · 2022Article
- Full scale structural, mechanical and dynamical properties of HIV-1 liposomes.PLoS computational biology · 2022Article
- CG2AT2: an Enhanced Fragment-Based Approach for Serial Multi-scale Molecular Dynamics Simulations.Journal of chemical theory and computation · 2021Article
- Dynamics of an LPS translocon induced by substrate and an antimicrobial peptide.Nature chemical biology · 2021Article
- How quickly can we predict trimethoprim resistance using alchemical free energy methods?Interface focus · 2020Article
- Characterization of Lipid-Protein Interactions and Lipid-Mediated Modulation of Membrane Protein Function through Molecular Simulation.Chemical reviews · 2019Review
- BUMPy: A Model-Independent Tool for Constructing Lipid Bilayers of Varying Curvature and Composition.Journal of chemical theory and computation · 2018Article
- Water and hydrophobic gates in ion channels and nanopores.Faraday discussions · 2018Article
- Article
- Crystal structure of undecaprenyl-pyrophosphate phosphatase and its role in peptidoglycan biosynthesis.Nature communications · 2018Article
- Article
- Structural insights into the mechanism of the membrane integral N-acyltransferase step in bacterial lipoprotein synthesis.Nature communications · 2017Article
- Convergence and Sampling in Determining Free Energy Landscapes for Membrane Protein Association.The journal of physical chemistry. B · 2017Article
- Structures of closed and open states of a voltage-gated sodium channel.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A necessary step prior to starting any membrane protein computer simulation is the creation of a well-packed configuration of protein(s) and lipids. Here, we demonstrate a method,
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.