ReviewThe Journal of membrane biology2011
Determining peptide partitioning properties via computer simulation.
Review in The Journal of membrane biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 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
13 citing papers in PubMed, 25 citations in OpenAlex.
- A photoswitchable helical peptide with light-controllable interface/transmembrane topology in lipidic membranes.iScience · 2021Article
- Preferential Equilibrium Partitioning of Positively Charged Tryptophan into Phosphatidylcholine Bilayer Membranes.The journal of physical chemistry. B · 2019Article
- The importance of the membrane interface as the reference state for membrane protein stability.Biochimica et biophysica acta. Biomembranes · 2018Article
- Computed Free Energies of Peptide Insertion into Bilayers are Independent of Computational Method.The Journal of membrane biology · 2018Article
- Efficient computation of transfer free energies of amino acids in beta-barrel membrane proteins.Bioinformatics (Oxford, England) · 2017Article
- Spontaneous formation of structurally diverse membrane channel architectures from a single antimicrobial peptide.Nature communications · 2016Article
- Article
- CHARMM-GUI HMMM Builder for Membrane Simulations with the Highly Mobile Membrane-Mimetic Model.Biophysical journal · 2015Article
- An effective coarse-grained model for biological simulations: recent refinements and validations.Proteins · 2014Article
- On the nature of the apparent free energy of inserting amino acids into membrane through the translocon.The journal of physical chemistry. B · 2013Article
- The Transmembrane Helix Tilt May Be Determined by the Balance between Precession Entropy and Lipid Perturbation.Journal of chemical theory and computation · 2012Article
- Derivation and systematic validation of a refined all-atom force field for phosphatidylcholine lipids.The journal of physical chemistry. B · 2012Article
- Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 2 countries.
Funding
Abstract
The transfer of polypeptide segments into lipid bilayers to form transmembrane helices represents the crucial first step in cellular membrane protein folding and assembly. This process is driven by complex and poorly understood atomic interactions of peptides with the lipid bilayer environment. The lack of suitable experimental techniques that can resolve these processes both at atomic resolution and nanosecond timescales has spurred the development of computational techniques. In this review, we summarize the significant progress achieved in the last few years in elucidating the partitioning of peptides into lipid bilayer membranes using atomic detail molecular dynamics simulations. Indeed, partitioning simulations can now provide a wealth of structural and dynamic information. Furthermore, we show that peptide-induced bilayer distortions, insertion pathways, transfer free energies, and kinetic insertion barriers are now accurate enough to complement experiments. Further advances in simulation methods and force field parameter accuracy promise to turn molecular dynamics simulations into a powerful tool for investigating a wide range of membrane active peptide phenomena.
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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.