PhD Studentship Available at NIMR, London

Jaap Heringa jhering at nimr.mrc.ac.uk
Wed Jan 14 10:40:31 EST 1998


A three-year Predoctoral MRC-funded Fellowship is available to
UK-Citizens in
the Division of Mathematical Biology, National Institute for
Medical Research (NIMR), Mill Hill, London. Head of the Division
is Dr Willie Taylor.

The following is a short outline of the project:


               PROTEIN STRUCTURAL DOMAINS AND REPEATS;
     ANALYSIS AND PREDICTION FROM SEQUENCE INFORMATION ALONE

The recognition of domains in protein structures is an important
prerequisite for areas in protein science such as NMR-based
structural elucidation and fold recognition. A number of empirical
observations render domain prediction from only sequence information
feasible, e.g., (i) domain interfaces show a.a. compositions
intermediate to those of core and surface regions, (ii) domain
linker regions display distinct compositions and (iii) domains in
many proteins are (distant) repeats of a same basic sequence stretch.
The project will embark on analysing existing databanks of protein
domains and use the information to devise sequence profiles against
which query sequences can be matched: A newly developed sensitive
protein segment detection method SEGS by Willie Taylor will be of great
use at this stage. Of help also will be the sensitive repeat detection
method REPRO (see Heringa & Taylor, Curr. Opin. Struct. Biol. 7:416-421,

1997).  All above information will be implemented in a computer method
aimed at delineating domain boundaries in protein sequences.

For more information, contact
Dr Jaap Heringa
Division of Mathematical Biology
National Institute for Medical Research (NIMR)
The Ridgeway, Mill Hill,
London NW7 1AA, U.K.

Tel.: +44 181 959 3666 ext. 2293
Fax : +44 181 913 8545
Email: jaap.heringa at nimr.mrc.ac.uk
WWW :  http://mathbio.nimr.mrc.ac.uk


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