Analysing the outer membrane subproteome of Methylococcus capsulatus (Bath) using proteomics and novel biocomputing tools
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. ISSN 0302-8933Full text not available from this repository.
Official URL: http://dx.doi.org/10.1007/s00203-005-0055-7
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|
|Subjects:||Q Science > QR Microbiology|
|Journal or Publication Title:||ARCHIVES OF MICROBIOLOGY|
|Number of Pages:||16|
|Page Range:||pp. 362-377|
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