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Analysis of protein/polypeptide interactions in human plasma using nondenaturing micro‐2‐DE followed by 3‐D SDS‐PAGE and MS
Author(s) -
Manabe Takashi,
Jin Ya
Publication year - 2007
Publication title -
electrophoresis
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.666
H-Index - 158
eISSN - 1522-2683
pISSN - 0173-0835
DOI - 10.1002/elps.200600691
Subject(s) - human plasma , chemistry , chromatography , polyacrylamide gel electrophoresis , biochemistry , microbiology and biotechnology , biology , enzyme
Previously, we have reported on the analysis of human plasma proteins on a nondenaturing micro‐2‐DE (μ2‐DE) gel, using in‐gel digestion followed by MALDI‐MS and PMF [1]. Many of the spots on the μ2‐DE gel showed apparent masses much larger than the calculated masses of their assigned polypeptides, suggesting noncovalent or covalent interactions between the polypeptides. In the present study, we aimed to further analyze the plasma protein spots on a nondenaturing μ2‐DE gel, on which protein/polypeptide interactions have been suggested. The proteins in the spots were extracted under alkaline conditions and subjected to 3‐D separation using SDS‐PAGE in microslab gel format (μSDS gel) with or without the sample treatment of reduction–alkylation. The clear bands in each lane of the μSDS gels demonstrated the successful extraction of proteins from the relevant gel spot and visualized the relative contents of the polypeptides in the spot. Most of the bands were assigned by in‐gel digestion followed by MALDI‐MS and PMF (MASCOT/Swiss‐Prot). The large discrepancy between the apparent mass value of a protein spot and the estimated mass values of the polypeptide bands on a nonreducing μSDS gel strongly suggested noncovalent polypeptide interactions. The differences in the polypeptide separation patterns on the μSDS gels, between with and without the treatment of reduction–alkylation, confirmed polypeptide disulfide bonding. The method employed here, aiming to integrate information on the proteins separated on nondenaturing 2‐DE gels with that on the interactions between polypeptides, would help the comprehensive understanding of complex protein systems.