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Article

Towards predicting coiled-coil protein interactions

Authors:

Peter S. KimAuthors Info & Claims

RECOMB '01: Proceedings of the fifth annual international conference on Computational biology

Pages 279 - 286

https://doi.org/10.1145/369133.369238

Published: 22 April 2001 Publication History

Abstract

Protein-protein interactions play a central role in many cellular functions, and as whole-genome data accumulates, computational methods for predicting these interactions become increasingly important. Computational methods have already proven to be a useful first step for rapid genome-wide identification of putative protein structure and function, but research on the problem of computationally determining biologically relevant partners for given protein sequences is just beginning. In this paper, we approach the problem of predicting protein-protein interactions by focusing on the 2- stranded coiled-coil motif. We introduce a computational method for predicting coiled-coil protein interactions, and give a novel framework that is able to use both genomic sequence data and experimental data in making these predictions. Cross-validation tests show that the method is able to predict many aspects of protein-protein interactions mediated by the coiled-coil motif, and suggest that this methodology can be used as the basis for genome-wide prediction of coiled-coil protein interactions.

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Cited By

Zhang HChen JWang YPeng LDong XLu YKeating AJiang T(2009)A Computationally Guided Protein-Interaction Screen Uncovers Coiled-Coil Interactions Involved in Vesicular TraffickingJournal of Molecular Biology10.1016/j.jmb.2009.07.006392:1(228-241)Online publication date: Sep-2009
https://doi.org/10.1016/j.jmb.2009.07.006
McDowell JWolfgang JSenty LSundy CNoto MMarconi R(2004)Demonstration of the Involvement of Outer Surface Protein E Coiled Coil Structural Domains and Higher Order Structural Elements in the Binding of Infection-Induced Antibody and the Complement-Regulatory Protein, Factor HThe Journal of Immunology10.4049/jimmunol.173.12.7471173:12(7471-7480)Online publication date: 15-Dec-2004
https://doi.org/10.4049/jimmunol.173.12.7471
Fong JKeating ASingh M(2004)Predicting specificity in bZIP coiled-coil protein interactionsGenome Biology10.1186/gb-2004-5-2-r115:2Online publication date: 16-Jan-2004
https://doi.org/10.1186/gb-2004-5-2-r11
Show More Cited By

Index Terms

Towards predicting coiled-coil protein interactions
1. Applied computing
  1. Life and medical sciences

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Published In

cover image ACM Conferences

RECOMB '01: Proceedings of the fifth annual international conference on Computational biology

April 2001

316 pages

ISBN:1581133537

DOI:10.1145/369133

Chairman:
Thomas Lengauer
German National Research Center for Information Technology, Germany

Copyright © 2001 ACM.

Permission to make digital or hard copies of all or part of this work for personal or classroom use is granted without fee provided that copies are not made or distributed for profit or commercial advantage and that copies bear this notice and the full citation on the first page. Copyrights for components of this work owned by others than ACM must be honored. Abstracting with credit is permitted. To copy otherwise, or republish, to post on servers or to redistribute to lists, requires prior specific permission and/or a fee. Request permissions from [email protected]

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Published: 22 April 2001

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RECOMB01: The Fifth Annual International Conference on Computational Molecular Biology

April 22 - 25, 2001

Quebec, Montreal, Canada

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RECOMB '01 Paper Acceptance Rate 35 of 128 submissions, 27%;

Overall Acceptance Rate 148 of 538 submissions, 28%

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Cited By

Zhang HChen JWang YPeng LDong XLu YKeating AJiang T(2009)A Computationally Guided Protein-Interaction Screen Uncovers Coiled-Coil Interactions Involved in Vesicular TraffickingJournal of Molecular Biology10.1016/j.jmb.2009.07.006392:1(228-241)Online publication date: Sep-2009
https://doi.org/10.1016/j.jmb.2009.07.006
McDowell JWolfgang JSenty LSundy CNoto MMarconi R(2004)Demonstration of the Involvement of Outer Surface Protein E Coiled Coil Structural Domains and Higher Order Structural Elements in the Binding of Infection-Induced Antibody and the Complement-Regulatory Protein, Factor HThe Journal of Immunology10.4049/jimmunol.173.12.7471173:12(7471-7480)Online publication date: 15-Dec-2004
https://doi.org/10.4049/jimmunol.173.12.7471
Fong JKeating ASingh M(2004)Predicting specificity in bZIP coiled-coil protein interactionsGenome Biology10.1186/gb-2004-5-2-r115:2Online publication date: 16-Jan-2004
https://doi.org/10.1186/gb-2004-5-2-r11
Florea LHalldórsson BKohlbacher OSchwartz RHoffman SIstrail S(2003)Epitope Prediction Algorithms for Peptide based Vaccine DesignProceedings of the IEEE Computer Society Conference on Bioinformatics10.5555/937976.938017Online publication date: 11-Aug-2003
https://dl.acm.org/doi/10.5555/937976.938017
Florea LHalldorsson BKohlbacher OSchwartz RHoffman SIstrail S(2003)Epitope prediction algorithms for peptide-based vaccine designComputational Systems Bioinformatics. CSB2003. Proceedings of the 2003 IEEE Bioinformatics Conference. CSB200310.1109/CSB.2003.1227293(17-26)Online publication date: 2003
https://doi.org/10.1109/CSB.2003.1227293

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