TECHNION - ISRAEL INSTITUTE OF TECHNOLOGY
DEPARTMENT OF COMPUTER SCIENCE
HAIFA 32000, ISRAEL
‫ מכון טכנולוגי לישראל‬- ‫הטכניון‬
‫הפקולטה למדעי המחשב‬
00333 ‫חיפה‬
+972-4-8294313 :'‫טל‬
+972-4-8293900 :'‫פקס‬
www.cs.technion.ac.il
Tel.: +972-4-8294313
Fax.: +972-4-8293900
www.cs.technion.ac.il
Bioinformatics Workshop Series
Bioinformatics of protein structures
Date & time:
Tuesday, June 28, 2005, 9:30-16:00
Location :
Auditorium, Faculty of Biology, Technion
Program :
9:30 - 9:45
Registration
9:45 - 10:35
Residue networks analysis of protein structures
Dr. Gil Amitai and Dr. Shmuel Pietrokovski
Protein structure data can be transformed into residue interaction networks. Analyzing
these graphs identifies functional sites such as - active sites, ligand binding sites, and
regions whose structural changes activate enzymes.
10:35 - 10:55
Coffee break
10:55 - 11:45
Analysis and prediction of protein metal-binding sites
Mariana Babor
The effect of metal binding on protein structure is presented.
Rules are derived and incorporated into an algorithm to predict Zn binding sites on the
metal unbound forms of proteins.
11:55 - 12:45
Structural analysis of protein-protein interactions
Vladimir Potapov
Complex formation using a rigid-like substructure on protein surfaces in sandwich-like
proteins is supported by structural analysis. We identified an interface core between
immunoglobulins light and heavy chains that presumably allows fast recognition and initial
binding of the chains.
14:30-16:00 DEMO session
Dr. Gil Amitai and Eran Eyal
Practical usage of protein structural analysis servers
* predicting functional sites from protein residue networks
A web server calculating and displaying likely functional sites of protein-structures
from their residues interaction networks will be demonstrated.
* modeling side-chain conformations
A web server implementing our new approach for side chain modeling will be
demonstrated. This tool is appropriate for homology modeling as well as for
prediction local structural changes in regions of point mutations.
* structural effects of point mutations
An interactive database (MutaProt) which holds information about structural
changes in the local regions of point mutations will be presented. For each mutation
a detailed analysis of the structure and the atomic contacts are available.
References & Links
1. SARIG protein structure network analysis: Amitai G, Shemesh A, Sitbon E,
Shklyar M, Netanely D, Venger I & Pietrokovski S, Network analysis of protein
structures identifies functional residues, J Molecular Biology 344:1136-1145 2004,
(Pubmed ID: 15544817)
2. SARIG WWW server: http://www.weizmann.ac.il/SARIG
3. Babor M, Greenblatt HM, Edelman M, & Sobolev V, Flexibility of metal
binding sites in proteins on a database scale. Proteins 59:221-230 2005. (Pubmed ID:
15726624)
4. Potapov V, Sobolev V, Edelman M, Kister A, & Gelfand I, Protein-protein
recognition: juxtaposition of domain and interface cores in immunoglobulins and
other sandwich-like proteins. J Molecular Biology 342:665-679 2004. (Pubmed ID:
15327963)
5.aProt interactive database: http://ligin.weizmann.ac.il/mutaprot
Lecturers:
Dr. Shmuel Pietrokovski, Molecular Genetics Dept., Weizmann Institute of Science
Dr. Gil Amitai, Biological Chemistry Dept., Weizmann Institute of Science
Mariana Babor, Plant Sciences Dept., Weizmann Institute of Science
Vladimir Potapov, Plant Sciences Dept., Weizmann Institute of Science
Eran Eyal, Plant Sciences Dept., Weizmann Institute of Science
Please register by e-mail to mshmoish@cs.technion.ac.il
This workshop is sponsored by the Center of Knowledge for Bioinformatics
Infrastructure (COBI), supported by the Ministry of Science.