ArticleBiophysical journal2006
Novel changes in discoidal high density lipoprotein morphology: a molecular dynamics study.
Article in Biophysical journal, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
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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.
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Who cites it
42 citing papers in PubMed, 92 citations in OpenAlex.
- Molecular dynamics simulations of lipid nanodiscs.Biochimica et biophysica acta. Biomembranes · 2018Article
- IgG Antibody 3D Structures and Dynamics.Antibodies (Basel, Switzerland) · 2018Review
- Nanodiscs in Membrane Biochemistry and Biophysics.Chemical reviews · 2017Review
- Electron Tomography: A Three-Dimensional Analytic Tool for Hard and Soft Materials Research.Advanced materials (Deerfield Beach, Fla.) · 2015Review
- A robust all-atom model for LCAT generated by homology modeling.Journal of lipid research · 2015Article
- Structural Insights into High Density Lipoprotein: Old Models and New Facts.Frontiers in pharmacology · 2015Review
- A model of lipid-free apolipoprotein A-I revealed by iterative molecular dynamics simulation.PloS one · 2015Article
- An experimentally robust model of monomeric apolipoprotein A-I created from a chimera of two X-ray structures and molecular dynamics simulations.Biochemistry · 2014Article
- Optimized negative staining: a high-throughput protocol for examining small and asymmetric protein structure by electron microscopy.Journal of visualized experiments : JoVE · 2014Article
- Conservation of apolipoprotein A-I's central domain structural elements upon lipid association on different high-density lipoprotein subclasses.Biochemistry · 2013Article
- MD simulations suggest important surface differences between reconstituted and circulating spherical HDL.Journal of lipid research · 2013Article
- α-Synuclein oligomers with broken helical conformation form lipoprotein nanoparticles.The Journal of biological chemistry · 2013Article
- Optimized negative-staining electron microscopy for lipoprotein studies.Biochimica et biophysica acta · 2013Review
- Validation of previous computer models and MD simulations of discoidal HDL by a recent crystal structure of apoA-I.Journal of lipid research · 2012Article
- Apolipoprotein A-II-mediated conformational changes of apolipoprotein A-I in discoidal high density lipoproteins.The Journal of biological chemistry · 2012Article
- Rotational and hinge dynamics of discoidal high density lipoproteins probed by interchain disulfide bond formation.Biochimica et biophysica acta · 2012Article
- An ABCA1-independent pathway for recycling a poorly lipidated 8.1 nm apolipoprotein E particle from glia.Journal of lipid research · 2011Article
- Lipid simulations: a perspective on lipids in action.Cold Spring Harbor perspectives in biology · 2011Review
- Apolipoprotein A-I structural organization in high-density lipoproteins isolated from human plasma.Nature structural & molecular biology · 2011Article
- "Sticky" and "promiscuous", the yin and yang of apolipoprotein A-I termini in discoidal high-density lipoproteins: a combined computational-experimental approach.Biochemistry · 2011Article
Corrections and comments
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Authors and funding
13 authors at 4 institutions in 1 country.
Funding
Abstract
ApoA-I is a uniquely flexible lipid-scavenging protein capable of incorporating phospholipids into stable particles. Here we report molecular dynamics simulations on a series of progressively smaller discoidal high density lipoprotein particles produced by incremental removal of palmitoyloleoylphosphatidylcholine via four different pathways. The starting model contained 160 palmitoyloleoylphosphatidylcholines and a belt of two antiparallel amphipathic helical lipid-associating domains of apolipoprotein (apo) A-I. The results are particularly compelling. After a few nanoseconds of molecular dynamics simulation, independent of the starting particle and method of size reduction, all simulated double belts of the four lipidated apoA-I particles have helical domains that impressively approximate the x-ray crystal structure of lipid-free apoA-I, particularly between residues 88 and 186. These results provide atomic resolution models for two of the particles produced by in vitro reconstitution of nascent high density lipoprotein particles. These particles, measuring 95 angstroms and 78 angstroms by nondenaturing gradient gel electrophoresis, correspond in composition and in size/shape (by negative stain electron microscopy) to the simulated particles with molar ratios of 100:2 and 50:2, respectively. The lipids of the 100:2 particle family form minimal surfaces at their monolayer-monolayer interface, whereas the 50:2 particle family displays a lipid pocket capable of binding a dynamic range of phospholipid molecules.
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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.