Victor I. Lesk

I am working in the Centre for Integrative Systems Biology at Imperial College London as a visiting researcher.

Contact:

Victor Lesk
Structural Bioinformatics Group
Centre for Bioinformatics
Division of Molecular Biosciences
Faculty of Natural Sciences
Imperial College
London
SW7 2AZ
U.K.
fax: +44 (0) 20 7594 5789
email: v.lesk AT imperial.ac.uk
http://www.sbg.bio.ic.ac.uk/



Research   —  Publications   —  Structural bioinformatics utilities   —  Teaching   —  External links

Research:

WIBL: a browser based portal for interdisciplinary systems biology projects

The Workbench for Integrative Systems Biology is a portal-based workbench for interdisciplinary systems biology projects.

Protein-protein docking and 3D-Garden

 Structural modelling of protein complexes, or protein-protein docking, is studied with the aim of understanding and predicting protein interactions, with significant consequences for bioinformatics and ultimately drug design. Current issues in docking include To this end we have developed 3D-Garden, a benchmarked and server-ready flexible docking system. Features include:

Glycostructure pathways in Mycobacterium and Campylobacter

 Cell surface glycans in the form of polysaccharides, glycoproteins and glycolipids are critical in cell-cell communication and cell signalling. In the context of host-pathogen interactions, microbial glycans are frequent targets of the pattern recognition receptors involved in triggering innate immune responses, and influence the uptake of microbes by host phagocytes. The aim of this part of the project is to test the hypothesis that the genetic diversity amongst strains of Mycobacterium bovis and Campylobacter jejuni results in alterations in the repertoire of surface glycans and thus modifies the host response to infection. The project addresses a central challenge in systems biology; to build networks that will allow us to "read across" between different omics datasets. We wish to develop a model that will allow us to infer the surface glycome from genetic data. We will use transcriptome and metabolome data to build models for two pathogens. The results of this project will provide input for other systems systems biology projects at Imperial College which aim to understand aspects of the host response to different cell surface glycans.

return to top

Publications:

return to top

Structural bioinformatics utilities:
split a pdb   —  dump interface

Split a pdb file into (combinations of) chain ID's
E-mail address    
PDB ID or upload file
all combinations of one or more chains all chains on their own specified chains combinations e.g. 'CD: :CA'

Dump residues at the interface between two specified chain ID groups of a pdb file
E-mail address    
PDB ID or upload file
there are only 2 chains ID's use interface between these two sets of chain ID's e.g. 'ABC:LH'
top of utilities   —  top of page

Teaching:

Docking: Modeling protein complexes (Macromolecules in 3D course)

EMBO Workshop: Docking Predictions of Protein Interaction

return to top

External links:

Docking software

return to top