AMPS D2.3a – Alignment of Multiple Protein Sequences

AMPS D2.3a

:: DESCRIPTION

AMPS (Alignment of Multiple Protein Sequences) is a suite of programs for multiple sequence alignment. The programs include options to incorporate non-sequence information such as secondary structures. AMPS also implements flexible pattern matching and database scanning options.   AMPS includes functions for running randomisations to estimate the significance of sequence similarities.

::DEVELOPER

The Barton Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

AMPS

:: MORE INFORMATION

Citation:

Barton, G. J. (1990),
Protein Multiple Sequence Alignment and Flexible Pattern Matching“,
Meth. Enzymol., 183, 403-428.

SALIGN r180 – Multiple Protein Sequence/Structure Alignment Server

SALIGN r180

:: DESCRIPTION

SALIGN is a general alignment module of the modeling program MODELLER. The alignments are computed using dynamic programming, making use of several features of the protein sequences and structures

::DEVELOPER

Andrej Sali Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

  NO

:: MORE INFORMATION

Citation

Bioinformatics. 2012 Aug 1;28(15):2072-3. doi: 10.1093/bioinformatics/bts302. Epub 2012 May 21.
SALIGN: a web server for alignment of multiple protein sequences and structures.
Braberg H1, Webb BM, Tjioe E, Pieper U, Sali A, Madhusudhan MS.

COMPASS 3.1 – COmparison of Multiple Protein Sequence Alignments with assessment of Statistical Significance.

COMPASS 3.1

:: DESCRIPTION

COMPASS runs a search with submitted alignment (or sequence) as a query against a database of protein families.

::DEVELOPER

Grishin Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 COMPASS

:: MORE INFORMATION

Citation:

R.I. Sadreyev, M. Tang, B. Kim and N.V. Grishin (2009)
COMPASS server for homology detection: improved statistical accuracy, speed, and functionality.
Nucleic Acids Res doi:10.1093/nar/gkp360.