Lipidbook: a public repository for force-field parameters used in membrane simulations.

Lipidbook: a public repository for force-field parameters used in membrane simulations.

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Lipidbook is a public database for force-field parameters with a special emphasis on lipids, detergents and similar molecules that are of interest when simulating biological membrane systems. It stores parameter files that are supplied by the community. Topologies, parameters and lipid or whole bila...

Deskribapen osoa

Xehetasun bibliografikoak
Egile Nagusiak:	Domański, J, Stansfeld, P, Sansom, MS, Beckstein, O
Formatua:	Journal article
Hizkuntza:	English
Argitaratua:	2010

Antzeko izenburuak

Lipidbook: A Public Repository for Force-Field Parameters Used in Membrane Simulations
nork: Domański, J, et al.
Argitaratua: (2010)

Molecular simulation approaches to membrane proteins.
nork: Stansfeld, P, et al.
Argitaratua: (2011)

Balancing force field protein-lipid interactions to capture transmembrane helix-helix association
nork: Domański, J, et al.
Argitaratua: (2018)

Coarse-grain simulations reveal movement of the synaptobrevin C-terminus in response to piconewton forces.
nork: Lindau, M, et al.
Argitaratua: (2012)

Biomimetic design of a brush-like nanopore: simulation studies.
nork: Pongprayoon, P, et al.
Argitaratua: (2012)

From Coarse Grained to Atomistic: A Serial Multiscale Approach to Membrane Protein Simulations
nork: Stansfeld, P, et al.
Argitaratua: (2011)

Multiscale simulations of lipid interactions with integral membrane proteins: aquaporins
nork: Stansfeld, P, et al.
Argitaratua: (2011)

Simulations of anion transport through OprP reveal the molecular basis for high affinity and selectivity for phosphate.
nork: Pongprayoon, P, et al.
Argitaratua: (2009)

Memprotmd: adding the grease to membrane protein structures
nork: Stansfeld, P, et al.
Argitaratua: (2012)

The influence of geometry, surface character, and flexibility on the permeation of ions and water through biological pores.
nork: Beckstein, O, et al.
Argitaratua: (2004)

A hydrophobic gate in an ion channel: the closed state of the nicotinic acetylcholine receptor.
nork: Beckstein, O, et al.
Argitaratua: (2006)

Liquid-vapor oscillations of water in hydrophobic nanopores.
nork: Beckstein, O, et al.
Argitaratua: (2003)

Simulations of the BM2 proton channel transmembrane domain from influenza virus B.
nork: Rouse, S, et al.
Argitaratua: (2009)

Water in transmembrane pores: Simulation studies.
nork: Sansom, M, et al.
Argitaratua: (2001)

BioSimGrid: towards a worldwide repository for biomolecular simulations.
nork: Tai, K, et al.
Argitaratua: (2004)

Simulation-based prediction of phosphatidylinositol 4,5-bisphosphate binding to an ion channel.
nork: Schmidt, MR, et al.
Argitaratua: (2013)

Multiple lipid binding sites determine the affinity of PH domains for phosphoinositide-containing membranes
nork: Domański, J, et al.
Argitaratua: (2020)

The MemProtMD database: A resource for membrane-embedded protein structures and their lipid interactions
nork: Newport, T, et al.
Argitaratua: (2018)

Membrane simulations: bigger and better?
nork: Forrest, L, et al.
Argitaratua: (2000)

The simulation approach to bacterial outer membrane proteins.
nork: Bond, P, et al.
Argitaratua: (2004)

Insertion and assembly of membrane proteins via simulation.
nork: Bond, P, et al.
Argitaratua: (2006)

Not ions alone: barriers to ion permeation in nanopores and channels.
nork: Beckstein, O, et al.
Argitaratua: (2004)

Computational studies of membrane proteins: from sequence to structure to simulation.
nork: Stansfeld, P
Argitaratua: (2017)

PIP(2)-binding site in Kir channels: definition by multiscale biomolecular simulations.
nork: Stansfeld, P, et al.
Argitaratua: (2009)

Insights into membrane protein-lipid interactions from free energy calculations
nork: Corey, R, et al.
Argitaratua: (2019)

Membrane protein simulations: ion channels and bacterial outer membrane proteins.
nork: Domene, C, et al.
Argitaratua: (2003)

Membrane proteins: molecular dynamics simulations.
nork: Lindahl, E, et al.
Argitaratua: (2008)

Continuum vs. particle simulations of model nano-pores
nork: Millar, C, et al.
Argitaratua: (2007)

Membrane simulations of OpcA: gating in the loops?
nork: Bond, P, et al.
Argitaratua: (2007)

Conformational Space and Dynamics of Sodium-Coupled Symporters
nork: Beckstein, O, et al.
Argitaratua: (2011)

The closed gate of the nicotinic receptor, identified by molecular dynamics free energy calculations
nork: Beckstein, O, et al.
Argitaratua: (2005)

The importance of surface character, geometry and flexibility in a hydrophobic gating mechanism for ion channels
nork: Beckstein, O, et al.
Argitaratua: (2004)

Molecular modeling and simulation studies of ion channel structures, dynamics and mechanisms.
nork: Tai, K, et al.
Argitaratua: (2008)

Molecular dynamics simulations and membrane protein structure quality.
nork: Ivetac, A, et al.
Argitaratua: (2008)

OmpT: molecular dynamics simulations of an outer membrane enzyme.
nork: Baaden, M, et al.
Argitaratua: (2004)

PX- and FYVE-mediated interactions with membranes: simulation studies.
nork: Psachoulia, E, et al.
Argitaratua: (2009)

Simulation studies of the interactions between membrane proteins and detergents.
nork: Bond, P, et al.
Argitaratua: (2005)

Ion channel gating: insights via molecular simulations.
nork: Beckstein, O, et al.
Argitaratua: (2003)

Molecular basis of alternating access membrane transport by the sodium-hydantoin transporter Mhp1.
nork: Shimamura, T, et al.
Argitaratua: (2010)

Atomistic mechanism of transmembrane helix association.
nork: Jan Domański, et al.
Argitaratua: (2020-06-01)