SOMRuler – A Novel Interpretable Transmembrane Helices Predictor

SOMRuler

:: DESCRIPTION

SOMRuler is a novel TMH predictor with excellent interpretability while possessing high prediction accuracy.

::DEVELOPER

Computational Systems Biology Group, Shanghai Jiao Tong University

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/Linux/MacOsX
  • Java

:: DOWNLOAD

 SOMRuler

:: MORE INFORMATION

Citation:

IEEE Trans Nanobioscience. 2011 Jun;10(2):121-9. doi: 10.1109/TNB.2011.2160730. Epub 2011 Jul 7.
SOMRuler: a novel interpretable transmembrane helices predictor.
Yu D, Shen H, Yang J.

Kink Finder 1.01 – Find Kinks in Helices

Kink Finder 1.01

:: DESCRIPTION

Kink Finder locates kinks in helices. Based on the local structure of the helix kink, it identifies a residue on the inside of the kink as the kink residue.

::DEVELOPER

Oxford Protein Informatics Group (OPIG)

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/Linux/MacOsX
  • Python

:: DOWNLOAD

 Kink Finder

:: MORE INFORMATION

HelixCorr 20081105 – Predict interacting Transmembrane Helices

HelixCorr 20081105

:: DESCRIPTION

HelixCorr is a software to predict correlated mutations specifically for the transmembrane parts of membrane proteins. It includes predictions obtained by several individual prediction algorithms and combines them to a consensus prediction.

::DEVELOPER

the Dmitrij Frishman lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 HelixCorr

:: MORE INFORMATION

Citation

Bioinformatics. 2007 Dec 15;23(24):3312-9.
Co-evolving residues in membrane proteins.
Fuchs A, Martin-Galiano AJ, Kalman M, Fleishman S, Ben-Tal N, Frishman D.

HELANAL-Plus – Characterize the Geometries of Helices present in Proteins

HELANAL-Plus

:: DESCRIPTION

HELANAL-Plus is a program to characterize overall geometry of helices from its C-alpha atom coordinates. This program can be very useful in analysis of protein secondary structure, modeling of membrane proteins, analysis of molecular dynamics runs of helices or alpha helical proteins, designed peptides containing helical motifs, etc.

::DEVELOPER

Prof. Manju Bansal Lab, MBU, IISc, Bangalore, India.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Linux

:: DOWNLOAD

 HELANAL-Plus

:: MORE INFORMATION

Citation

Kumar, P. & Bansal, M. (2012).
HELANAL-Plus: a web server for analysis of helix geometry in protein structures.
J Biomol Struct Dyn. 30: 773-783