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Analysing the outer membrane subproteome of Methylococcus capsulatus (Bath) using proteomics and novel biocomputing tools
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UNSPECIFIED (2006) Analysing the outer membrane subproteome of Methylococcus capsulatus (Bath) using proteomics and novel biocomputing tools. ARCHIVES OF MICROBIOLOGY, 184 (6). pp. 362-377. doi:10.1007/s00203-005-0055-7 ISSN 0302-8933.
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Official URL: http://dx.doi.org/10.1007/s00203-005-0055-7
Abstract
High-resolution two-dimensional gel electrophoresis and mass spectrometry has been used to identify the outer membrane (OM) subproteome of the Gram-negative bacterium Methylococcus capsulatus (Bath). Twenty-eight unique polypeptide sequences were identified from protein samples enriched in OMs. Only six of these polypeptides had previously been identified. The predictions from novel bioinformatic methods predicting beta-barrel outer membrane proteins (OMPs) and OM lipoproteins were compared to proteins identified experimentally. BOMP (http://www.bioinfo.no/tools/bomp) predicted 43 beta-barrel OMPs (1.45%) from the 2,959 annotated open reading frames. This was a lower percentage than predicted from other Gram-negative proteomes (1.8-3%). More than half of the predicted BOMPs in M. capsulatus were annotated as (conserved) hypothetical proteins with significant similarity to very few sequences in Swiss-Prot or TrEMBL. The experimental data and the computer predictions indicated that the protein composition of the M. capsulatus OM subproteome was different from that of other Gram-negative bacteria studied in a similar manner. A new program, Lipo, was developed that can analyse entire predicted proteomes and give a list of recognised lipoproteins categorised according to their lipo-box similarity to known Gram-negative lipoproteins (http://www.bioinfo.no/tools/lipo). This report is the first using a proteomics and bioinformatics approach to identify the OM subproteome of an obligate methanotroph.
Item Type: | Journal Article | ||||
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Subjects: | Q Science > QR Microbiology | ||||
Journal or Publication Title: | ARCHIVES OF MICROBIOLOGY | ||||
Publisher: | SPRINGER | ||||
ISSN: | 0302-8933 | ||||
Official Date: | February 2006 | ||||
Dates: |
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Volume: | 184 | ||||
Number: | 6 | ||||
Number of Pages: | 16 | ||||
Page Range: | pp. 362-377 | ||||
DOI: | 10.1007/s00203-005-0055-7 | ||||
Publication Status: | Published |
Data sourced from Thomson Reuters' Web of Knowledge
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