Cell Defense 1.0 – The Plasma Membrane

Cell Defense 1.0

:: DESCRIPTION

Cell Defense : The only barrier between the cell and the dangers of the outside world is the plasma membrane. Defend your cell by building a functional plasma membrane and thwart the evil plans of Dr. Vial to destroy all life on earth! Learn how the membrane works and its parts, including phospholipids, cholesterol, proteins, and carbohydrates. Also, learn about cell transport!

::DEVELOPER

BioMan Biology

:: SCREENSHOTS

CellDefense

:: REQUIREMENTS

  • Web browser / iPad/ iPhone

:: DOWNLOAD

 Cell Defense

:: MORE INFORMATION

MBPpred – Prediction of Membrane lipid-Binding Proteins using profile Hidden Markov Models

MBPpred

:: DESCRIPTION

MBPpred is a profile Hidden Markov Model based method capable of predicting membrane binding proteins (MBPs).

::DEVELOPER

The Biophysics and Bioinformatics Laboratory

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

MBPpred: Proteome-wide detection of membrane lipid-binding proteins using profile Hidden Markov Models.
Nastou KC, Tsaousis GN, Papandreou NC, Hamodrakas SJ.
Biochim Biophys Acta. 2016 Apr 2. pii: S1570-9639(16)30057-7. doi: 10.1016/j.bbapap.2016.03.015.

MembraneEditor 2.2.2_2 – Modeling, Visualization and Analysis of PDB-based Membranes

MembraneEditor 2.2.2_2

:: DESCRIPTION

The CELLmicrocosmos MembraneEditor (CmME) interactively generates heterogeneous PDB-based membranes with varying lipid compositions and semi-automatic protein placement. Supports membrane patches and vesicles, microdomains as well as stacking of monolayer and/or bilayer membranes.

::DEVELOPER

the Bioinformatics / Medical Informatics department at Bielefeld University.

:: SCREENSHOTS

:: REQUIREMENTS

  •  Linux / Windows/ MacOsX
  • Java

:: DOWNLOAD

 MembraneEditor

:: MORE INFORMATION

Citation

J Chem Inf Model. 2011 May 23;51(5):1165-82. doi: 10.1021/ci1003619. Epub 2011 Apr 19.
CELLmicrocosmos 2.2 MembraneEditor: a modular interactive shape-based software approach to solve heterogeneous membrane packing problems.
Sommer B1, Dingersen T, Gamroth C, Schneider SE, Rubert S, Krüger J, Dietz KJ.

iMembrane – Homology-Based Insertion of Proteins into the Membrane

iMembrane

:: DESCRIPTION

iMembrane is a homology-based method, which predicts a membrane protein’s position within a lipid bilayer. It projects the results of coarse-grained molecular dynamics simulations onto any membrane protein structure or sequence provided by the user.

::DEVELOPER

the Oxford Protein Informatics Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser
  • Java

:: DOWNLOAD

  NO

:: MORE INFORMATION

Citation

Bioinformatics. 2009 Apr 15;25(8):1086-8. doi: 10.1093/bioinformatics/btp102. Epub 2009 Feb 23.
iMembrane: homology-based membrane-insertion of proteins.
Kelm S, Shi J, Deane CM.

MemGen – Setting up Membrane Simulation systems

MemGen

:: DESCRIPTION

MemGen (Membrane Generator) creates multi-component lipid bilayer membranes for molecular dynamics simulations.

::DEVELOPER

Computational Biophysics Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Bioinformatics. 2015 May 7. pii: btv292.
MemGen: A general web server for the setup of lipid membrane simulation systems.
Knight CJ, Hub JS

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