The Ups and Downs of Protein Topology

Table of contents

The Ups and Downs of Protein Topology

What is Bioinformatics?

The Data Explosion

Classification

Protein Structure

CATH

Classifying a New Structure

Dynamic Programming

What is Topology?

General Use of "Topology"

3 Levels of Topology

Topology Strings

Comparing Strings

What is our goal?

Can Primary Predict Tertiary?

Primary Topology Similarity

Unusual Examples!

What is Secondary Topology?

Encoding Direction

Neighbourliness

Accessibility

Secondary Topology Similarity

Coverage Graphs

Performance

Further Applications

Conclusions

Acknowledgements

Author: Andrew C.R. Martin

E-mail: A.C.R.Martin@reading.ac.uk

Homepage: http://www.bioinf.org.uk/

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