ASSP 1.0 – Analysis of Secondary Structure Elements in Proteins

ASSP 1.0

:: DESCRIPTION

ASSP is a Java application for analysis of secondary structure of three-dimensional protein models. It is based on the algorithm used in DSSP (Kabsch & Sander, 1983). A user-supplied structure in form of a PDB file will be analysed for H-bonding and geometric parameters to deliver a secondary structure assignment.

::DEVELOPER

Hofmann Laboratory, Eskitis Institute

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • linux/ Windows/ MacOsX
  • Java

:: DOWNLOAD

 ASSP

:: MORE INFORMATION

Citation

Wang, C.K., Hofmann, A. (2014)
An integrated Java tool for generating amino acid sequence alignments with mapped secondary structure elements.
3Biotech 5, 87-92.

SFESA – Shift to Fix secondary structure ElementS in Alignments

SFESA

:: DESCRIPTION

SFESA is a tool to refine pairwise protein sequence alignment, with a combination of sequence and structural scoring by locally shifting secondary structure elements

::DEVELOPER

Grishin Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 SFESA

:: MORE INFORMATION

Citation:

Proteins. 2015 Mar;83(3):411-27. doi: 10.1002/prot.24746. Epub 2015 Jan 13.
Refinement by shifting secondary structure elements improves sequence alignments.
Tong J1, Pei J, Otwinowski Z, Grishin NV.