… Protein sequence similarity networks (SSNs) are visually powerful tools for analyzing sequence
relationships in protein families (HJ Atkinson, JH Morris, TE Ferrin, and PC Babbitt, PLoS …

The Enzyme Function Initiative (EFI) was recently established to address the challenge of
assigning reliable functions to enzymes discovered in bacterial genome projects; in this …

Nonribosomal peptide synthetase (NRPS) assembly lines are major avenues for the
biosynthesis of a vast array of peptidyl natural products. Several hundred bacterial NRPS gene …

Glidobactins are hybrid NRPS-PKS natural products that function as irreversible proteasome
inhibitors. A variety of medium chain 2(E),4(E)-diene fatty acids N-acylate the peptidolactam …

Functional assignment of uncharacterized proteins is a challenge in the era of large-scale
genome sequencing. Here, we combine in extracto NMR, proteomics and transcriptomics with …

The protein databases contain many proteins with unknown function. A computational approach
for predicting ligand specificity that requires only the sequence of the unknown protein …

Data sharing and reuse are regarded as important components of the research workflow and
key elements in open science. While reuse is well-documented in some circumstances, the …

The Pseudomonas aeruginosa toxin L-2-amino-4-methoxy-trans-3-butenoic acid (AMB) is a
non-proteinogenic amino acid which is toxic for prokaryotes and eukaryotes. Production of …

… tepidum catalyzes the non-stereospecific exchange of both 3-hydroxymethylene protons in
dihydroxyacetone 1-phosphate (HJ Imker and JA Gerlt, unpublished observations). Thus, we …

The rapid advance in genome sequencing presents substantial challenges for protein
functional assignment, with half or more of new protein sequences inferred from these genomes …