Conserved water molecules in a large family of microbial ribonucleases.

TitleConserved water molecules in a large family of microbial ribonucleases.
Publication TypeJournal Article
Year of Publication1999
AuthorsLoris, R., U. Langhorst, S. De Vos, K. Decanniere, J. Bouckaert, D. Maes, T. R. Transue, and J. Steyaert
JournalProteins
Volume36
Issue1
Pagination117-34
Date Published1999 Jul 1
ISSN0887-3585
KeywordsAmino Acid Sequence, Bacteria, Crystallography, X-Ray, Fungi, Models, Molecular, Molecular Sequence Data, Protein Conformation, Recombinant Proteins, Ribonucleases, Sequence Homology, Amino Acid, Solvents, Water
Abstract

We systematically analyzed the crystallographically determined water molecules of all known structures of RNase T1 and compared them to the ordered solvent in a large number of related microbial nucleases. To assess the crystallographers' impact on the interpretation of the solvent structure, we independently refined five validation structures from diffraction data derived from five isomorphous crystals of RNase T1. We also compared the positions of water molecules found in 11 published isomorphous RNase T1 inhibitor complexes. These data suggest that the positions of most of the waters located on the surface of a protein and that are well-determined in the experimental electron density maps are determined primarily by crystal packing forces. Water molecules with less well-defined electron density are in general unique to one or a small number of crystal structures. Only a small number of the well-defined waters are found to be independent of the crystal environment. These waters have a low accessible surface area and B-factor, and tend to be conserved in the crystal structures of a number of evolutionary related ribonucleases as well. A single water molecule is found conserved in all known microbial ribonucleases.

Alternate JournalProteins
PubMed ID10373011