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lipidbook.bioch.ox.ac.uk

Lipidbook - A public repository for lipid force field parameters and topologies

A database of parameters for the molecular simulation of biological membrane systems.

http://lipidbook.bioch.ox.ac.uk/

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Lipidbook - A public repository for lipid force field parameters and topologies | lipidbook.bioch.ox.ac.uk Reviews
<META>
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A database of parameters for the molecular simulation of biological membrane systems.
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1 lipids
2 membrane
3 bilayer
4 force field
5 parameters
6 molecular dynamics
7 Charmm
8 GROMOS
9 OPLS
10 Amber
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policy,register,browse packages 89,add new package,lipids,resources,feed,lipidbook,our policy,please read,browse,packages,start by browsing,the database,instead of search,loading,reference,issue tracker,wiki,questions and answers,static site content
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Lipidbook - A public repository for lipid force field parameters and topologies | lipidbook.bioch.ox.ac.uk Reviews

https://lipidbook.bioch.ox.ac.uk

A database of parameters for the molecular simulation of biological membrane systems.

LINKS TO THIS WEBSITE

wiki.biowerkzeug.org wiki.biowerkzeug.org

Membranes - Biowerkzeug Wiki

http://wiki.biowerkzeug.org/index.php/Membranes

Simulations of proteins must also represent the environment faithfully (simulations in vacuum. Appropriate in most cases and really date back to the days when computer resources were severely limited). The environment of a protein consists of the solvent. And, if it's a membrane protein, of the lipid bilayer. Here we discuss methods to represent the lipid membrane. Force-field parameters for lipids are often not distributed with the standard force field files but can be found on the lipidbook.

sbcb.bioch.ox.ac.uk sbcb.bioch.ox.ac.uk

SBCB Unit: Positions

http://sbcb.bioch.ox.ac.uk/positions.php

Research positions and other job opportunities. Please email Prof. Mark Sansom mark.sansom@bioch.ox.ac.uk. Or Dr Phil Biggin. Laboratory of Molecular Biophysics, University of Oxford. Wellcome Trust Graduate Programme in Structural Biology. Systems Biology Doctoral Training Centre. Life Sciences Interface Doctoral Training Centre. NC3Rs Studentship: Using Molecular Simulation to Improve Prediction of Drug Export. For more information click here.

alanine.usc.es alanine.usc.es

Soft Matter & Molecular Biophysics Web Site

http://alanine.usc.es/angel.html

Soft Matter and Molecular Biophysics Group. Welcome to my personal page! Aacute;ngel Piñeiro, PhD, Isidro Parga Pondal Fellow. Soft Matter and Molecular Biophysics Group. Department of Applied Physics, Faculty of Physics. University of Santiago de Compostela. Phone: 34 981 563 100 ext. 14042. E-mail: Angel.Pineiro at usc.es. Summary of my trajectory. I obtained my degree in Physics (1996), Msc (1998) and PhD (2001) in Applied Physics at the University of Santiago de Compostela ( USC. To perform neutron r...

smmb.usc.es smmb.usc.es

Soft Matter & Molecular Biophysics Web Site

http://smmb.usc.es/angel.html

Soft Matter and Molecular Biophysics Group. Welcome to my personal page! Aacute;ngel Piñeiro, PhD, Associate Professor. Soft Matter and Molecular Biophysics Group. Department of Applied Physics, Faculty of Physics. University of Santiago de Compostela. Phone: 34 981 563 100 ext. 14042. E-mail: Angel.Pineiro at usc.es. Summary of my trajectory. I got a PhD in Applied Physics from the Univ. of Santiago de Compostela ( USC. Led by Prof. Alan Mark. At the Univ. of Groningen. Platform for the thermodynamic an...

sbcb.bioch.ox.ac.uk sbcb.bioch.ox.ac.uk

SBCB Unit: Prof Mark Sansom

http://sbcb.bioch.ox.ac.uk/sansom.php

Prof Mark S.P. Sansom. Structural Bioinformatics and Computational Biochemistry Unit. Note: new telephone/fax numbers*. E-mail: mark.sansom@bioch.ox.ac.uk. Ion channels and membrane proteins - simulations, modelling and bioinformatics. For current members of my group see: http:/ sbcb.bioch.ox.ac.uk/members.php. Research in my group is currently funded by: BBSRC, EPSRC, MRC, The Wellcome Trust. Distributed database for biomolecular simulations. Integrated approach to multi-level biomolecular simulations.

sbcb.bioch.ox.ac.uk sbcb.bioch.ox.ac.uk

SBCB Unit: George Hedger

http://sbcb.bioch.ox.ac.uk/currentmembers/hedger.php

Structural Bioinformatics and Computational Biochemistry Unit. E-mail: george.hedger@lincoln.ox.ac.uk. Characterising lipid-protein interactions through computational modelling. I obtained my undergraduate degree in Biochemistry from the University of Oxford in 2014. My final year masters project involved investigating lipid interactions of the human receptor tyrosine kinase (hRTK) family of membrane proteins, and was supervised by Dr Heidi Kolds&oslash. And the Department of Biochemistry. My research in...

sbcb.bioch.ox.ac.uk sbcb.bioch.ox.ac.uk

SBCB Unit: Dr Heidi Kolds&oslash

http://sbcb.bioch.ox.ac.uk/currentmembers/koldsoe.php

Structural Bioinformatics and Computational Biochemistry Unit. E-mail: heidi.koldsoe@bioch.ox.ac.uk. Coarse-grained and atomistic molecular dynamics simulations of signaling complexes. I obtained my BSc, MSc and PhD degrees in Medicinal Chemistry from Aarhus University. Aarhus, Denmark. My PhD research was mainly focused on homology modelling, induced fit docking and molecular dynamics simulations of human monoamine transporters. The work is supported by the Alfred Benzon Foundation. 2015) The juxtamembr...

sbcb.bioch.ox.ac.uk sbcb.bioch.ox.ac.uk

SBCB Unit: Seminars

http://sbcb.bioch.ox.ac.uk/seminars.php

Main Seminar Room, Biochemistry Building, Main Seminar Room, off South Parks Road OX1 3QU. Annaduncan@bioch.ox.ac.uk. Main Seminar Room, Biochemistry Building, Main Seminar Room, off South Parks Road OX1 3QU. Annaduncan@bioch.ox.ac.uk. Main Seminar Room, Biochemistry Building, Main Seminar Room, off South Parks Road OX1 3QU. Annaduncan@bioch.ox.ac.uk. Gianni Klesse, Joseph Bluck, Bartosz Bartmanski. Anatomy Lecture Theatre, Le Gros Clark Building, Anatomy Lecture Theatre, off South Parks Road OX1 3QX.

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Membrane Protein Data Bank MPDB

Please note: The Membrane Protein Data Bank is online after an absence. It has not been regularly updated since January 2011. Membrane Protein Data Bank. 285 UNIQUE PROTEINS / PEPTIDES. 155 UNIQUE PROTEIN FAMILIES. Latest Entry: 29 January 2011. Help improve this Resource by submitting. When referring to the MPDB, please cite. Raman, P., Cherezov, V., Caffrey, M. 2006. The Membrane Protein Data Bank. Cell Mol. Life Sci. ENTER PROTEIN NAME OR PDB ID. Number of Unique Visits Since February 5, 2006 :.

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Lipidbook - A public repository for lipid force field parameters and topologies

Most recent package Martini Gromacs 1,2-dioleoyl-sn-glycero-3-phosphocholine by Daily MD et al. Is a public repository for force field parameters with a special emphasis on lipids, detergents, and similar molecules that are of interest when simulating biological membranes. It acts as a warehouse for parameter files that are supplied by the community. Anyone can browse and download parameters but deposition of files requires user registration. For more details and contact information see About. J Doma&#x1...

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The physicochemical properties of the different lipid species are essential for the structural and functional organization of the biological membrane and its interaction with integral and peripheral membrane proteins. The lipid head groups are not the only important determinants of membranes; the nature of the lipid acyl chains strongly influences membrane properties. To facilitate the creation of realistic biological membranes for molecular simulations, the present web-server, based on a VMD.

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