Extending ribosomal protein identifications to unsequenced bacterial strains using matrix-assisted laser desorption/ionization mass spectrometry.

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Suh MJ, Hamburg DM, Gregory ST, Dahlberg AE, Limbach PA

Extending ribosomal protein identifications to unsequenced bacterial strains using matrix-assisted laser desorption/ionization mass spectrometry.

Proteomics. 2005 Dec;5(18):4818-31.

PubMed ID
16287167 [ View in PubMed
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Abstract

A protocol has been developed that allows protein identifications using available DNA-based or protein sequences from a reference strain of a bacterial species to be extended to bacterial strains for which no prior DNA-based or protein sequence information exists. The protocol is predicated on careful isolation of a specific sub-cellular group of proteins. In this study, ribosomal proteins were chosen due to their high relative abundance and similarity in copy number per cell. After isolation of ribosomal proteins, MALDI-MS is used to acquire accurate protein molecular weights. An iterative comparison of reference protein molecular weights and identities is made to the resulting data, allowing for the straightforward identification of ribosomal proteins from any non-reference strains. This approach can reveal differences between proteins at the amino acid or post-translational level. The protocol was developed, validated and applied to ribosomal proteins from three strains of the extreme thermophile Thermus thermophilus. This approach revealed that nearly 60% of the ribosomal proteins from all three strains are identical. The extension of protein identification to additional bacterial strains can be useful in phylogenetic studies as well as in biomarker identification.

DrugBank Data that Cites this Article

Polypeptides
NameUniProt ID
50S ribosomal protein L27P60493Details
30S ribosomal protein S10Q5SHN7Details
30S ribosomal protein S12Q5SHN3Details
30S ribosomal protein S11P80376Details
30S ribosomal protein S13P80377Details
30S ribosomal protein S15Q5SJ76Details
30S ribosomal protein S16Q5SJH3Details
30S ribosomal protein S18Q5SLQ0Details
30S ribosomal protein S19Q5SHP2Details
30S ribosomal protein S20P80380Details
30S ribosomal protein S4P80373Details
30S ribosomal protein S5Q5SHQ5Details
30S ribosomal protein S6Q5SLP8Details
30S ribosomal protein S7P17291Details
30S ribosomal protein S9P80374Details
30S ribosomal protein ThxQ5SIH3Details
30S ribosomal protein S3P80372Details
30S ribosomal protein S14 type ZP0DOY6Details
30S ribosomal protein S17P0DOY7Details
30S ribosomal protein S8P0DOY9Details