A Topology Structure Based Outer Membrane Proteins Segment Alignment Method
Joint Authors
Sun, Pingping
Ma, Zhiqiang
Wang, Han
Liu, Bo
Source
Mathematical Problems in Engineering
Issue
Vol. 2013, Issue 2013 (31 Dec. 2013), pp.1-10, 10 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2013-10-26
Country of Publication
Egypt
No. of Pages
10
Main Subjects
Abstract EN
Outer membrane proteins (OMPs) are transmembrane proteins (TMPs) located in outer membranes.
These proteins perform diverse biochemical functions and have immediate medical relevance, so that their spatial structures are important for studying.
But the special physicochemical properties of OMP make it hard to obtain their structures experimentally.
For the purpose of predicting OMP structures, discriminating OMPs and aligning their sequences to native structures are indispensable steps.
We developed a novel method OMSA (Outer Membrane Segment Alignment), which implemented both steps in one program.
OMSA integrates OMP-specific topology features to implement a sequence-to-structure alignment, for example, segment type and segment orientation, while a segment-dependent gap penalty model is employed to improve the alignment.
Compared to peer top-leading methods, OMSA achieved higher accuracy in both OMP discrimination and alignment, which may further improve OMP structure studying.
American Psychological Association (APA)
Wang, Han& Liu, Bo& Sun, Pingping& Ma, Zhiqiang. 2013. A Topology Structure Based Outer Membrane Proteins Segment Alignment Method. Mathematical Problems in Engineering،Vol. 2013, no. 2013, pp.1-10.
https://search.emarefa.net/detail/BIM-1009778
Modern Language Association (MLA)
Wang, Han…[et al.]. A Topology Structure Based Outer Membrane Proteins Segment Alignment Method. Mathematical Problems in Engineering No. 2013 (2013), pp.1-10.
https://search.emarefa.net/detail/BIM-1009778
American Medical Association (AMA)
Wang, Han& Liu, Bo& Sun, Pingping& Ma, Zhiqiang. A Topology Structure Based Outer Membrane Proteins Segment Alignment Method. Mathematical Problems in Engineering. 2013. Vol. 2013, no. 2013, pp.1-10.
https://search.emarefa.net/detail/BIM-1009778
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1009778