Assessment of the Use of Topological Quantities in Structural Bioinformatics - Tapa blanda

Lu, Jiantao

 
9783639045703: Assessment of the Use of Topological Quantities in Structural Bioinformatics
Tapa blanda
ISBN 10: 363904570X ISBN 13: 9783639045703
Editorial: VDM Verlag Dr. Mueller e.K., 2008

Sinopsis

Protein structure is complex trajectory in 3D space and it can be ab­stracted into a polygonal curve. Capturing structural properties from the Cartesian coordinates of thousands of atoms is an important step in performing structural analysis such as similarity detection and defining patterns. The objective of this research is to investigate the potential use of some knot theoretic quantities such as self-linking, R30 invariants and HEO vector for structural Bioinformatics applications. The work presented suggests that self-linking (writhing) can be used to identify a-helices. A revised sliding window approach together with 2 curve simplification methods were employed in the optimal window analysis to capture regions that maximize or mini­mize self-linking properties in a protein’s backbone trajectory. The accuracy of this method is significant although insufficient to be used for domain boundary identification. Most interestingly, the topo­logical properties of adjacent protein domains are significantly larger than for domain that are not adjacent within a gene. This experi­mental result suggests that proteins tend to evolve contiguous domains with polarized topological properties.

"Sinopsis" puede pertenecer a otra edición de este libro.

Reseña del editor

Protein structure is complex trajectory in 3D space and it can be ab­stracted into a polygonal curve. Capturing structural properties from the Cartesian coordinates of thousands of atoms is an important step in performing structural analysis such as similarity detection and defining patterns. The objective of this research is to investigate the potential use of some knot theoretic quantities such as self-linking, R30 invariants and HEO vector for structural Bioinformatics applications. The work presented suggests that self-linking (writhing) can be used to identify a-helices. A revised sliding window approach together with 2 curve simplification methods were employed in the optimal window analysis to capture regions that maximize or mini­mize self-linking properties in a protein's backbone trajectory. The accuracy of this method is significant although insufficient to be used for domain boundary identification. Most interestingly, the topo­logical properties of adjacent protein domains are significantly larger than for domain that are not adjacent within a gene. This experi­mental result suggests that proteins tend to evolve contiguous domains with polarized topological properties.

"Sobre este título" puede pertenecer a otra edición de este libro.

Editorial
VDM Verlag Dr. Mueller e.K.
Año de publicación
2008
Idioma
Inglés
ISBN 10 
363904570X
ISBN 13 
9783639045703
Encuadernación
Tapa blanda
Número de páginas
108
Contacto del fabricante
no disponible
Persona responsable
no disponible