Protein Surface Characterization Using an Invariant Descriptor
Joint Authors
Jiang, Bing-Hua
Adjeroh, Donald A.
Abu Deeb, Zainab
Source
International Journal of Biomedical Imaging
Issue
Vol. 2011, Issue 2011 (31 Dec. 2011), pp.1-15, 15 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2011-11-22
Country of Publication
Egypt
No. of Pages
15
Main Subjects
Abstract EN
Aim.
To develop a new invariant descriptor for the characterization of protein surfaces, suitable for various analysis tasks, such as protein functional classification, and search and retrieval of protein surfaces over a large database.
Methods.
We start with a local descriptor of selected circular patches on the protein surface.
The descriptor records the distance distribution between the central residue and the residues within the patch, keeping track of the number of particular pairwise residue cooccurrences in the patch.
A global descriptor for the entire protein surface is then constructed by combining information from the local descriptors.
Our method is novel in its focus on residue-specific distance distributions, and the use of residue-distance co-occurrences as the basis for the proposed protein surface descriptors.
Results.
Results are presented for protein classification and for retrieval for three protein families.
For the three families, we obtained an area under the curve for precision and recall ranging from 0.6494 (without residue co-occurrences) to 0.6683 (with residue co-occurrences).
Large-scale screening using two other protein families placed related family members at the top of the rank, with a number of uncharacterized proteins also retrieved.
Comparative results with other proposed methods are included.
American Psychological Association (APA)
Abu Deeb, Zainab& Adjeroh, Donald A.& Jiang, Bing-Hua. 2011. Protein Surface Characterization Using an Invariant Descriptor. International Journal of Biomedical Imaging،Vol. 2011, no. 2011, pp.1-15.
https://search.emarefa.net/detail/BIM-508113
Modern Language Association (MLA)
Abu Deeb, Zainab…[et al.]. Protein Surface Characterization Using an Invariant Descriptor. International Journal of Biomedical Imaging No. 2011 (2011), pp.1-15.
https://search.emarefa.net/detail/BIM-508113
American Medical Association (AMA)
Abu Deeb, Zainab& Adjeroh, Donald A.& Jiang, Bing-Hua. Protein Surface Characterization Using an Invariant Descriptor. International Journal of Biomedical Imaging. 2011. Vol. 2011, no. 2011, pp.1-15.
https://search.emarefa.net/detail/BIM-508113
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-508113