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Updated: Aug 4, 2026
16:41
A Protocol for Computer-Based Protein Structure and Function Prediction
Published on: November 3, 2011
MATCH-UP/MATRIX: a microcomputer program designed to search for protein primary structure homology
1Department of Biological Chemistry, Milton S. Hershey Medical Center, Pennsylvania State University, Hershey 17033.
Computer Applications in the Biosciences : CABIOS
|June 1, 1986
Summary
The MATCH-UP/MATRIX program aids protein structure determination by comparing amino acid sequences for homology. It identifies significant similarities and detects insertions or deletions between protein structures.
Area of Science:
- Biochemistry
- Computational Biology
- Bioinformatics
Background:
- Determining primary protein structure is crucial for understanding biological function.
- Comparing novel peptide sequences with known proteins aids in structural and functional inference.
- Existing computational tools may lack specific functionalities for homology detection and alignment analysis.
Purpose of the Study:
- To introduce MATCH-UP/MATRIX, a software program for analyzing protein sequences.
- To provide researchers with a tool for identifying amino acid sequence homology.
- To facilitate the detection of insertions and deletions in protein structures.
Main Methods:
- The MATCH-UP/MATRIX program is implemented in Applesoft BASIC for the Apple IIe.
- MATCH-UP compares user-defined peptide sequences against a database of known protein structures.
- MATRIX analyzes and aligns two protein sequences to identify structural variations.
Main Results:
- MATCH-UP identifies peptide-to-protein alignments meeting user-specified homology thresholds.
- MATRIX detects insertions and/or deletions between aligned protein or peptide sequences.
- The program provides a quantitative measure of sequence homology.
Conclusions:
- MATCH-UP/MATRIX offers a valuable computational approach for primary protein structure analysis.
- The software assists in identifying homologous proteins and characterizing sequence variations.
- This tool supports researchers in structural biology and comparative genomics.
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