Top-Down Characterization of the Post-Translationally Modified Intact Periplasmic Proteome from the Bacterium Novosphingobium aromaticivorans
Abstract
The periplasm of Gram-negative bacteria is a dynamic and physiologically important subcellular compartment where the constant exposure to potential environmental insults amplifies the need for proper protein folding and modifications. Top-down proteomics analysis of the periplasmic fraction at the intact protein level provides unrestricted characterization and annotation of the periplasmic proteome, including the post-translational modifications (PTMs) on these proteins. Here, we used single-dimension ultra-high pressure liquid chromatography coupled with the Fourier transform mass spectrometry (FTMS) to investigate the intact periplasmic proteome of Novosphingobium aromaticivorans . Our top-down analysis provided the confident identification of 55 proteins in the periplasm and characterized their PTMs including signal peptide removal, N-terminal methionine excision, acetylation, glutathionylation, pyroglutamate, and disulfide bond formation. This study provides the first experimental evidence for the expression and periplasmic localization of many hypothetical and uncharacterized proteins and the first unrestrictive, large-scale data on PTMs in the bacterial periplasm.
- Authors:
-
- Environmental Molecular Science Laboratory, Pacific Northwest National Laboratory, P.O. Box 999/MS K8-98, Richland, WA 99352, USA
- Center for Bioproducts and Bioenergy, Washington State University, Richland, WA, USA
- Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, USA
- Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory, Richland, WA, USA
- Department of Neurobiology, 720 Westview Drive SW, Atlanta, GA, USA
- Publication Date:
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER)
- OSTI Identifier:
- 1197932
- Grant/Contract Number:
- AC05-76RLO-1830; 1097055
- Resource Type:
- Published Article
- Journal Name:
- International Journal of Proteomics
- Additional Journal Information:
- Journal Name: International Journal of Proteomics Journal Volume: 2013; Journal ID: ISSN 2090-2166
- Publisher:
- Hindawi Publishing Corporation
- Country of Publication:
- Country unknown/Code not available
- Language:
- English
Citation Formats
Wu, Si, Brown, Roslyn N., Payne, Samuel H., Meng, Da, Zhao, Rui, Tolić, Nikola, Cao, Li, Shukla, Anil, Monroe, Matthew E., Moore, Ronald J., Lipton, Mary S., and Paša-Tolić, Ljiljana. Top-Down Characterization of the Post-Translationally Modified Intact Periplasmic Proteome from the Bacterium Novosphingobium aromaticivorans. Country unknown/Code not available: N. p., 2013.
Web. doi:10.1155/2013/279590.
Wu, Si, Brown, Roslyn N., Payne, Samuel H., Meng, Da, Zhao, Rui, Tolić, Nikola, Cao, Li, Shukla, Anil, Monroe, Matthew E., Moore, Ronald J., Lipton, Mary S., & Paša-Tolić, Ljiljana. Top-Down Characterization of the Post-Translationally Modified Intact Periplasmic Proteome from the Bacterium Novosphingobium aromaticivorans. Country unknown/Code not available. https://doi.org/10.1155/2013/279590
Wu, Si, Brown, Roslyn N., Payne, Samuel H., Meng, Da, Zhao, Rui, Tolić, Nikola, Cao, Li, Shukla, Anil, Monroe, Matthew E., Moore, Ronald J., Lipton, Mary S., and Paša-Tolić, Ljiljana. Sun .
"Top-Down Characterization of the Post-Translationally Modified Intact Periplasmic Proteome from the Bacterium Novosphingobium aromaticivorans". Country unknown/Code not available. https://doi.org/10.1155/2013/279590.
@article{osti_1197932,
title = {Top-Down Characterization of the Post-Translationally Modified Intact Periplasmic Proteome from the Bacterium Novosphingobium aromaticivorans},
author = {Wu, Si and Brown, Roslyn N. and Payne, Samuel H. and Meng, Da and Zhao, Rui and Tolić, Nikola and Cao, Li and Shukla, Anil and Monroe, Matthew E. and Moore, Ronald J. and Lipton, Mary S. and Paša-Tolić, Ljiljana},
abstractNote = {The periplasm of Gram-negative bacteria is a dynamic and physiologically important subcellular compartment where the constant exposure to potential environmental insults amplifies the need for proper protein folding and modifications. Top-down proteomics analysis of the periplasmic fraction at the intact protein level provides unrestricted characterization and annotation of the periplasmic proteome, including the post-translational modifications (PTMs) on these proteins. Here, we used single-dimension ultra-high pressure liquid chromatography coupled with the Fourier transform mass spectrometry (FTMS) to investigate the intact periplasmic proteome of Novosphingobium aromaticivorans . Our top-down analysis provided the confident identification of 55 proteins in the periplasm and characterized their PTMs including signal peptide removal, N-terminal methionine excision, acetylation, glutathionylation, pyroglutamate, and disulfide bond formation. This study provides the first experimental evidence for the expression and periplasmic localization of many hypothetical and uncharacterized proteins and the first unrestrictive, large-scale data on PTMs in the bacterial periplasm.},
doi = {10.1155/2013/279590},
journal = {International Journal of Proteomics},
number = ,
volume = 2013,
place = {Country unknown/Code not available},
year = {Sun Mar 10 00:00:00 EST 2013},
month = {Sun Mar 10 00:00:00 EST 2013}
}
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