Secondary structure spatial conformation footprint: a novel method for fast protein structure comparison and classification

doi:10.1186/1472-6807-6-12

BMC Structural Biology
Volume 6

Viewing options:

Abstract
Full text
PDF (970KB)
Additional files

Associated material:

Related literature:

Articles citing this article
on BioMed Central
on Google Scholar
on ISI Web of Science
on PubMed Central
Other articles by authors
on Google Scholar

Zotenko E
O'Leary DP
Przytycka TM

on PubMed

Zotenko E
O'Leary DP
Przytycka TM
Related articles/pages
on Google

on Google Scholar

on PubMed

Tools:

Post to:

Research article

Secondary structure spatial conformation footprint: a novel method for fast protein structure comparison and classification

Elena Zotenko¹^,3 , Dianne P O'Leary¹^,2 and Teresa M Przytycka³

¹Department of Computer Science, University of Maryland,College Park, MD 20742, USA

²Institute for Advanced Computer Studies, University of Maryland, College Park, MD 20742,USA

³National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA

author email corresponding author email

BMC Structural Biology 2006, 6:12doi:10.1186/1472-6807-6-12


Published:	8 June 2006

Additional files

Additional File 2:

SCOP 1.69 nearest neighbor classification. An Excel workbook that contains nearest neighbor classification accuracies.

Format: XLS Size: 746KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional File 3:

SCOP 1.69 coverage versus error for the fold level.

Format: EPS Size: 24KB Download file

Additional File 4:

SCOP 1.69 coverage versus error for the super-family level.

Format: EPS Size: 24KB Download file

Additional File 5:

SCOP 1.69 coverage versus error for the family level.

Format: EPS Size: 24KB Download file

Additional File 6:

CATH 2.6 nearest neighbor classification. An Excel workbook that contains nearest neighbor classification accuracies. The PRIDE2 data is not shown due to technical difficulties of running the program on the CATH dataset.

Format: XLS Size: 293KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional File 7:

CATH 2.6 coverage versus error for the topology level. The PRIDE2 data is not shown due to technical difficulties of running the program on the CATH dataset.

Format: EPS Size: 21KB Download file

Additional File 8:

CATH 2.6 coverage versus error for the homologous super-family level. The PRIDE2 data is not shown due to technical difficulties of running the program on the CATH dataset.

Format: EPS Size: 21KB Download file

Additional File 1:

SCOP 1.65 nearest neighbor classification. An Excel workbook that contains nearest neighbor classification accuracies.

Format: XLS Size: 556KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional File 9:

SCOP 1.65 list of domains in the 40%-id dataset.

Format: SCOP Size: 47KB Download file

Additional File 10:

SCOP 1.69 list of domains in the 40%-id dataset.

Format: SCOP Size: 61KB Download file

Additional File 11:

CATH 2.6 list of domains in the 35%-id dataset.

Format: CATH Size: 44KB Download file

Additional File 12:

The Python code for the SSEF method. An archive that contains the Python code and auxiliary files necessary to compute the SSE footprint from a PDB file of a structure.

Format: TAR Size: 300KB Download file