PINTS – Patterns In Non-homologous Tertiary Structures

PINTS

:: DESCRIPTION

PINTS finds reoccuring three-dimensional patterns of amino acids. These amino-acids are close in space but not necessarily close or co-linear in sequence, for example the serine-protease catalytic triad. Unlike other tools, PINTS does not aim to find proteins adopting a similar fold.

::DEVELOPER

the Cell Networks Protein Evolution group based at the University of Heidelberg.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux

:: DOWNLOAD

PINTS

:: MORE INFORMATION

Citation

A. Stark, S. Sunyaev, R.B. Russell,
‘A model for statistical significance of local similarities in structure‘,
J. Mol. Biol, 326, 1307-1316, 2003.

LGT3State 20081223 – Detect LGT (swapping) of two non-homologous Enzymes

LGT3State 20081223

:: DESCRIPTION

LGT3State is a program for inferring lateral gene transfer (LGT) in cases where there are two non-homologous genes, where each gene performs the same function (which is essential to the cell). Thus, there are three states which may characterize an organism: (a) it encodes gene A, (b) it encodes gene B, (c), it encodes both genes A and B.

::DEVELOPER

Adi Stern

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux / WIndows

:: DOWNLOAD

LGT3State

:: MORE INFORMATION

Citation

Stern A., Mayrose I., Penn, O., Shaul S., Gophna U., Pupko T.
An Evolutionary Analysis of Lateral Gene Transfer in Thymidylate Synthase Enzymes.
Syst Biol. 2010 March; 59(2): 212–225.