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Authors: Jamal Raiyn and Anwar Rayan

Affiliation: Al-Qasemi Academic College, Israel

Keyword(s): Homology/comparative modeling, 3D-structure prediction, Multiple sequence alignment.

Related Ontology Subjects/Areas/Topics: Bioinformatics ; Biomedical Engineering ; Biomedical Signal Processing

Abstract: Homology modelling is utilized to predict the 3-D structure of a given protein (target) based on its sequence alignment to a protein whose structure (template) has been experimentally determined. The use of such technique is already rewarding and increasingly widespread in biological research and drug development. The accuracy of the predictions as commonly accepted is dependent on the score of target protein - template sequence identity. Given the sequence identity score of pairs of proteins, certain questions are raised as to whether we can assess or quantitate the quality of the obtained model. Also, whether we should choose, the protein with the highest sequence identity as a template. The answer to these questions is critical since only with such determinations, we could decide how to choose the template and to which usage the model is reliable. We intend in the paper to assess the accuracy of sequence identity-based homology modeling by analyzing a database of 4560 pair-wise se quence and structural alignments. The decision making process regarding to which parts of the known protein to perform structural alignment is not trivial and clearer rules should be extracted. (More)

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Paper citation in several formats:
Raiyn, J. and Rayan, A. (2009). HOW MUCH SEQUENCE IDENTITY GUARANTEE GOOD MODELS IN HOMOLOGY MODELING - Proteins from Serine Protease Family as a Test Case?. In Proceedings of the International Conference on Bio-inspired Systems and Signal Processing (BIOSTEC 2009) - BIOSIGNALS; ISBN 978-989-8111-65-4; ISSN 2184-4305, SciTePress, pages 455-458. DOI: 10.5220/0001379204550458

@conference{biosignals09,
author={Jamal Raiyn. and Anwar Rayan.},
title={HOW MUCH SEQUENCE IDENTITY GUARANTEE GOOD MODELS IN HOMOLOGY MODELING - Proteins from Serine Protease Family as a Test Case?},
booktitle={Proceedings of the International Conference on Bio-inspired Systems and Signal Processing (BIOSTEC 2009) - BIOSIGNALS},
year={2009},
pages={455-458},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0001379204550458},
isbn={978-989-8111-65-4},
issn={2184-4305},
}

TY - CONF

JO - Proceedings of the International Conference on Bio-inspired Systems and Signal Processing (BIOSTEC 2009) - BIOSIGNALS
TI - HOW MUCH SEQUENCE IDENTITY GUARANTEE GOOD MODELS IN HOMOLOGY MODELING - Proteins from Serine Protease Family as a Test Case?
SN - 978-989-8111-65-4
IS - 2184-4305
AU - Raiyn, J.
AU - Rayan, A.
PY - 2009
SP - 455
EP - 458
DO - 10.5220/0001379204550458
PB - SciTePress

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