What we do
... is write our own software
for analyzing assorted data from protein bioinformatics
and computational biology of proteins. Occasionaly we do MD simulations.
We are closet game developers
Servers & Code & More
is a server for fast searching through PDB
(and some of its subsets) using a piece of structure as a query - among other things,
the superimposed structures are downloadable as Pymol, Chimera and Yasara sessions.
Cube finds both overall conserved and
sub-family specific residues for the user-uploaded sets of protein sequences
is a database of pre-calculated results
(including visualizations and modifiable spreadsheets) for finding sub-family specific residues. Useful when planning
an experiment targeted at detecting regions of a protein responsible for a function that is unique among
similar proteins expressed in the same organism.
OrthoBalancer for a given set of
from one species,
creates non-overlapping sets of (tentative)
sequences from other species and taxonomical groups.
is a database of protein coding exons from
completed vertebrate genomes in Ensembl. Exons are organized into alignments of
and when an exon appears to be missing form a species, we look for it using our own hardware accelerated version of
Smith-Waterman algorithm. Our user friendly alignment feature common speceis names,
taxonomy-related ordering of sequences,
highlighted exon boundaries, amino acid and nucleotide views of each alignment,
downloadable alignments and notes and more.
Check us out.
The Ultimate Cell Biology Game on the Internet.
(At least we try.) We are indebted to Matt Nowack
for the analogy.