Proteome database of Pseudomonas putida KT2440

A member of the Pseudomonas family, Pseudomonas putida KT2440 is a Gram-negative bacterium possessing a relatively large genome. This implies that P. putida KT2440 should harbour many as-yet unknown metabolic pathways and regulatory mechanisms useful for biotechnology applications. Indeed, there has been an upsurge in research activities aiming to develop P. putida KT2440 as a microbial cell factory. But, more importantly, P. putida KT2440 primary role in biotech has been its use in various environmental remediation applications, particularly with respects to ameliorating soil and water pollution. Such remediation applications dovetail with the microbe’s inherent metabolic diversity in catabolizing a variety of toxic organic compounds recalcitrant to degradation by other common biotechnology strains. This work sought to provide some fundamental information of P. putida KT2440 through parsing its UniProt proteome using an in-house MATLAB software. In particular, a proteome database was built that comprises protein name, amino acid sequence, number of residues in proteins, molecular weight as well as nucleotide sequence of proteins. Such a global level proteome database should find use in informing presence/absence of particular metabolic pathways in the bacterium as well as enabling hitherto unknown signalling and regulatory effectors to be uncovered.