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Use of vectors in sequence analysis
T Ishikawa1, K Yamamoto, H Yoshikura
1Department of Bacteriology, Faculty of Medicine, University of Tokyo.
Japanese Journal of Cancer Research : Gann
|October 1, 1987
Summary
This study introduces a novel vector diagram method for protein structure analysis. This approach enhances homology searches by detecting subtle conformational similarities missed by traditional programs.
Area of Science:
- Structural bioinformatics
- Computational biology
- Protein structure analysis
Background:
- Traditional homology search methods may miss proteins with similar structures but dissimilar sequences.
- Understanding protein structure is crucial for identifying functional relationships and potential drug targets.
Purpose of the Study:
- To present the applications of a new protein structure representation called the vector diagram.
- To demonstrate the utility of vector diagrams in homology searching for various proteins, including oncogene products.
Main Methods:
- Utilizing a novel vector diagram representation for protein structures.
- Incorporating amino acid property data, such as Chou and Fasman's probability data.
- Applying the method to homology search tasks.
Main Results:
- The vector diagram method successfully identified conformational similarities between proteins.
- These similarities were not detectable by conventional homology search programs.
- The approach is applicable to diverse protein families, including oncogene products.
Conclusions:
- Vector diagrams offer a powerful new tool for protein structure representation and analysis.
- This method improves the sensitivity of homology searches, revealing deeper structural relationships.
- The technique has significant implications for protein function prediction and drug discovery.