alexa Phylogenetic Profiles Reveal Structural and Functional Determinants of Lipid-binding | OMICS International
ISSN: 0974-276X

Journal of Proteomics & Bioinformatics
Open Access

Like us on:
OMICS International organises 3000+ Global Conferenceseries Events every year across USA, Europe & Asia with support from 1000 more scientific Societies and Publishes 700+ Open Access Journals which contains over 50000 eminent personalities, reputed scientists as editorial board members.

Open Access Journals gaining more Readers and Citations

700 Journals and 15,000,000 Readers Each Journal is getting 25,000+ Readers

This Readership is 10 times more when compared to other Subscription Journals (Source: Google Analytics)

Research Article

Phylogenetic Profiles Reveal Structural and Functional Determinants of Lipid-binding

Yoojin Hong1,2#, Dimitra Chalkia3#, Kyung Dae Ko1,3, Gaurav Bhardwaj1,3, Gue Su Chang1,3, Damian B. van Rossum1,3*, Randen L. Patterson1,3*

1Center for Computational Proteomics

2Department of Computer Science

3Department of Biology, The Pennsylvania State University

#These authors contributed equally to this work

*Corresponding Author:
Dr. Randen L. Patterson
230 Life Science Bldg
University Park, PA 16802
Tel: 001-814-865-1668
Fax : 001-814-863-1357
E-mail: [email protected]

Dr. Damian B. van Rossum
518 Wartik Labs
University Park, PA 16802
Tel: 001-814-863-1007
Fax : 001-814-863-1357
E-mail: [email protected]

Received Date: February 12, 2009; Accepted Date: March 20, 2009; Published Date: March 21, 2009

Citation: Hong Y, Chalkia D, Ko KD, Bhardwaj G, Chang GS, et al. (2009) Phylogenetic Profiles Reveal Structural and Functional Determinants of Lipid-binding. J Proteomics Bioinform 2: 139-149. doi: 10.4172/jpb.1000071

Copyright: © 2009 Hong Y, et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

Abstract

One of the major challenges in the genomic era is a nnotating structure/function to the vast quantities of se- quence information now available. Indeed, most of t he protein sequence database lacks comprehensive an nota- tion, even when experimental evidence exists. Furth er, within structurally resolved and functionally a nnotated protein domains, additional functionalities contain ed in these domains are not apparent. To add furthe r complica- tion, small changes in the amino-acid sequence can lead to profound changes in both structure and func tion, underscoring the need for rapid and reliable method s to analyze these types of data. Phylogenetic prof iles pro- vide a quantitative method that can relate the stru ctural and functional properties of proteins, as we ll as their evolutionary relationships. Using all of the struct urally resolved Src-Homology-2 (SH2) domains, we de mon- strate that knowledge-bases can be used to create s ingle-amino acid phylogenetic profiles which reliab ly anno- tate lipid-binding. Indeed, these measures isolate the known phosphotyrosine and hydrophobic pockets a s inte- gral to lipid-binding function. In addition, we det ermined that the SH2 domain of Tec family kinases b ind to lipids with varying affinity and specificity. Simulating mutations in Bruton’s tyrosine kinase (BTK) that ca use X-Linked Agammaglobulinemia (XLA) predict that these mutatio ns alter lipid-binding, which we confirm experiment ally. In light of these results, we propose that XLA-caus ing mutations in the SH3-SH2 domain of BTK alter li pid- binding, which could play a causative role in the X LA-phenotype. Overall, our study suggests that the number of lipid-binding proteins is drastically underestimate d and, with further development, phylogenetic profi les can provide a method for rapidly increasing the functio nal annotation of protein sequences.

Peer Reviewed Journals
 
Make the best use of Scientific Research and information from our 700 + peer reviewed, Open Access Journals
International Conferences 2017-18
 
Meet Inspiring Speakers and Experts at our 3000+ Global Annual Meetings

Contact Us

Agri & Aquaculture Journals

Dr. Krish

[email protected]

1-702-714-7001Extn: 9040

Biochemistry Journals

Datta A

[email protected]

1-702-714-7001Extn: 9037

Business & Management Journals

Ronald

[email protected]

1-702-714-7001Extn: 9042

Chemistry Journals

Gabriel Shaw

[email protected]

1-702-714-7001Extn: 9040

Clinical Journals

Datta A

[email protected]

1-702-714-7001Extn: 9037

Engineering Journals

James Franklin

[email protected]

1-702-714-7001Extn: 9042

Food & Nutrition Journals

Katie Wilson

[email protected]

1-702-714-7001Extn: 9042

General Science

Andrea Jason

[email protected]

1-702-714-7001Extn: 9043

Genetics & Molecular Biology Journals

Anna Melissa

[email protected]

1-702-714-7001Extn: 9006

Immunology & Microbiology Journals

David Gorantl

[email protected]

1-702-714-7001Extn: 9014

Materials Science Journals

Rachle Green

[email protected]

1-702-714-7001Extn: 9039

Nursing & Health Care Journals

Stephanie Skinner

[email protected]

1-702-714-7001Extn: 9039

Medical Journals

Nimmi Anna

[email protected]

1-702-714-7001Extn: 9038

Neuroscience & Psychology Journals

Nathan T

[email protected]

1-702-714-7001Extn: 9041

Pharmaceutical Sciences Journals

Ann Jose

[email protected]

1-702-714-7001Extn: 9007

Social & Political Science Journals

Steve Harry

[email protected]

1-702-714-7001Extn: 9042

 
© 2008- 2017 OMICS International - Open Access Publisher. Best viewed in Mozilla Firefox | Google Chrome | Above IE 7.0 version