CATH Documentation

Table of Contents

Benoît Dessailly

Former Member

In September 2011 I moved to Osaka, Japan, to work as a Post-Doctoral Fellow in Dr Mizuguchi's group at the National Institute of Biomedical Innovation.

Research Interests

My main research interests include the study of interactions between proteins and other molecules, both at the structural and network levels.

I am also interested in the analysis of function evolution within families of proteins, and in particular, in the way related proteins adopt different functions in the course of evolution.

List of Publications (as of February 2012)

Gene3D: a domain-based resource for comparative genomics, functional annotation and protein network analysis.
Lees J, Yeats C, Perkins J, Sillitoe I, Rentzsch R, Dessailly BH, Orengo C
Nucleic Acids Res40pD465-71(2012 Jan)

Rigid-body ligand recognition drives cytotoxic T-lymphocyte antigen 4 (CTLA-4) receptor triggering.
Yu C, Sonnen AF, George R, Dessailly BH, Stagg LJ, Evans EJ, Orengo CA, Stuart DI, Ladbury JE, Ikemizu S, Gilbert RJ, Davis SJ
J Biol Chem286p6685-96(2011 Feb 25)

Detailed analysis of function divergence in a large and diverse domain superfamily: toward a refined protocol of function classification.
Dessailly BH, Redfern OC, Cuff AL, Orengo CA
Structure18p1522-35(2010 Nov 10)

Transient protein-protein interactions: structural, functional, and network properties.
Perkins JR, Diboun I, Dessailly BH, Lees JG, Orengo C
Structure18p1233-43(2010 Oct 13)

FLORA: a novel method to predict protein function from structure in diverse superfamilies.
Redfern OC, Dessailly BH, Dallman TJ, Sillitoe I, Orengo CA
PLoS Comput Biol5pe1000485(2009 Aug)

The evolution of protein functions and networks: a family-centric approach.
Dessailly BH, Reid AJ, Yeats C, Lees JG, Cuff A, Orengo CA
Biochem Soc Trans37p745-50(2009 Aug)

PSI-2: structural genomics to cover protein domain family space.
Dessailly BH, Nair R, Jaroszewski L, Fajardo JE, Kouranov A, Lee D, Fiser A, Godzik A, Rost B, Orengo C
Structure17p869-81(2009 Jun 10)

Exploiting structural classifications for function prediction: towards a domain grammar for protein function.
Dessailly BH, Redfern OC, Cuff A, Orengo CA
Curr Opin Struct Biol19p349-56(2009 Jun)

Relating destabilizing regions to known functional sites in proteins.
Dessailly BH, Lensink MF, Wodak SJ
BMC Bioinformatics8p141(2007 Apr 30)

LigASite--a database of biologically relevant binding sites in proteins with known apo-structures.
Dessailly BH, Lensink MF, Orengo CA, Wodak SJ
Nucleic Acids Res36pD667-73(2008 Jan)

Exploring the structure and function paradigm.
Redfern OC, Dessailly B, Orengo CA
Curr Opin Struct Biol18p394-402(2008 Jun)

Other CATH Team Members

Person Description
clegg [Andrew with a half-metre sausage, found (and eaten) on holiday in Germany recently] Senior Research Associate, CATH Development A member of the Orengo group since June 2008, I am the technical lead on the FuncNet platform, which brings together an ensemble of protein function analysis tools from various groups around Europe. This work is supported by the EU-funded EMBRACE and ENFIN research networks.
cuff [ Me and my Cat] CATH Manager I am responsible for the general management and manual curation of CATH. Academic Background As a undergraduate, I read for a BSc(Hons) degree in Biomedical Sciences at the University of Durham and then, after deciding I wanted to pursue Bioinformatics research, I took a MSc degree in Information Technology at the University of Teesside (this was all back in the days before MSc courses in Bioinformatics became available!).
lee [ ] Post Doctoral Research Fellow I work for the Midwest Center for Structural Genomics (MCSG). My responsibilities include selecting protein targets for structure determination, monitoring the success of target selection strategies, and providing homology models of relatives of MCSG structures.
lees Gene3D Since arriving in October 06 I've been doing development of the Gene3D database in collaboration with Corin Yeats. I also maintain the current Gene3D website. I am involved in several collaborations with experimentalists. Recently (June 2009) I have started a new post employed by ENFIN coordinating a chromosome condensation prediction project, with Juan Ranea (Malaga) and the Ellenberg group (EMBL) (amongst others). We are using novel high throughput phenotype data (Ellenberg Group) a…
lewis [Me in Malaysia] Senior Programmer I was heavily involved in the complete rewrite of the CATH update procedure that culminated in CATH v3.0.0. I am still involved in maintaining and developing CATH in an ongoing consultancy capacity. Academic Background MSc Intelligent Systems, UCL (2002-2003)
orengo See departmental staff page
perkins [Me] London Pain Consortium PhD Student I am a member of the London Pain Consortium, an initiative formed in 2002 by a grant from the Wellcome Trust. I am currently moving into the first year proper of my PhD, supervised by Christine and based in the CATH lab, having completed a year of 3 rotations, working on projects with different labs.
phil [Me] Role in CATH I am post doctoral research associate. One of my responsibilities is the target selection database for the Center for Structural Genomics of Infectious Diseases's structural genomics project. Research Interests CSGID applies state-of-the-art high-throughput structural biology technologies to experimentally characterise the three dimensional atomic structure of targeted proteins from pathogens in the NIAID Category A-C priority lists and organisms causing emerging and re-eme…
redfern [Posing on the southbank of the Thames] Post-Doctoral Research fellow I work as part of the Midwest Consortium for Structural Genomics, aiding target selection and analysis of the novelty of the protein structures they produce. In parallel, I also develop methods for homology recognition and function prediction from protein structure and sequence.
reid [Me enjoying a traditional Japanese kaiseki meal in a ryokan somewhere outside Kyoto] Me enjoying a traditional Japanese kaiseki meal in a ryokan somewhere outside Kyoto PhD student I am currently nearing the end of my PhD and planning to submit by the end of the year.
rentzsch [Me] Former PhD student I did my PhD in the lab between 2007 and 2012, funded by a EU grant (ENFIN). The ENFIN Network of Excellence aims at close collaboration between experimental and computational groups throughout Europe. I've also worked as a research assistant here.
sillitoe [Me with one of the Sillitoe clan (I'm the one on the right)] CATH Technical Manager I am responsible for the technical aspect of CATH. This generally involves maintaining and developing both the front-end interfaces (internal and external web pages and webservices) and back-end code library and databases.
studer {{ :cathteam:picture.jpg|Me}} {Role in CATH} Description of role in CATH Academic Background Current Research Interests Your research interests go here. Put some pretty pictures in with something like the following: {{ :cathteam:consensus_contact_map_example.png?300 |Example of a consensus structural alignment and contact map }}
yeats Gene3D and BioMiner Gene3D: Design and development, HMM library construction and prediction verification, and web services. Academic Background PhD at the Sanger Institute (2004), supervised by Alex Bateman (Pfam). Thesis: Biological Investigations Through Sequence Analysis.
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