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Updated: May 27, 2026

Resolving Affinity Purified Protein Complexes by Blue Native PAGE and Protein Correlation Profiling

Resolving Affinity Purified Protein Complexes by Blue Native PAGE and Protein Correlation Profiling

Published on: April 1, 2017

SCPC: a method to structurally compare protein complexes.

Ryotaro Koike¹, Motonori Ota

¹Department of Complex Systems Science, Graduate School of Information Science, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8601, Japan. rkoike@is.nagoya-u.ac.jp

Bioinformatics (Oxford, England)

|December 2, 2011

Summary

This summary is machine-generated.

A new method, Structural Comparison of Protein Complexes (SCPC), efficiently compares protein complex structures. SCPC analyzes subunit spatial arrangements using secondary structures, proving valuable for biological research.

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Area of Science:

Structural biology
Bioinformatics
Computational biology

Background:

Protein-protein interactions are crucial for biological functions.
Experimental methods provide atomic resolution structures of protein complexes.
An automated method is needed to analyze the vast number of protein complexes in the Protein Data Bank.

Purpose of the Study:

To develop an automated method for comparing protein complex structures.
To assess the efficiency and accuracy of the developed method.

Main Methods:

Structural Comparison of Protein Complexes (SCPC) method was developed.
SCPC compares spatial arrangements of subunits using secondary structure elements.
Similarity scoring based on detected substructures.

Main Results:

SCPC was applied to dimers, homo-oligomers, and haemoglobins.
SCPC demonstrated comparable performance to existing methods like MM-align for dimers.
SCPC identified conserved substructures in oligomers and provided consistent classification of hemoglobin quaternary structures.

Conclusions:

SCPC is a valuable tool for investigating protein complex structures.
The method facilitates the analysis of large-scale structural data.
SCPC aids in understanding the functional roles of protein complexes.