A review about nothing: are apolar cavities in proteins really empty?
Cavities within proteins that are strictly apolar typically appear to be empty. It has been suggested, however, that water molecules may be present within such cavities but are too disordered to be seen in conventional crystallographic analyses. In contrast, it is argued here that solvent mobility will be limited by the size of the cavity and for this reason high-occupancy solvent in cavities of typical volume should be readily detectable using X-ray crystallography. Recent experimental studies of cavity hydration are reviewed. Such studies are consistent with theoretical predictions that it is energetically unfavorable to have a single water molecule in an apolar cavity. As apolar cavities become larger, a point is reached where it is favorable to have the cavity occupied by a cluster of mutually H-bonded water molecules. The exact size of such a cavity in a protein is yet to be verified.
Matthews
Brian W
BW
Department of Physics, Institute of Molecular Biology, Howard Hughes Medical Institute, 1229 University of Oregon, Eugene, Oregon 97403-1229, USA. brian@uoregon.edu
Liu
Lijun
L
D000818:Animals; D018360:Crystallography, X-Ray; D006801:Humans; D006860:Hydrogen Bonding; D053583:Interleukin-1beta / Q000737:chemistry; D008956:Models, Chemical; D008958:Models, Molecular; D009113:Muramidase / Q000737:chemistry; D019906:Nuclear Magnetic Resonance, Biomolecular; D011487:Protein Conformation; D011506:Proteins / Q000737:chemistry* / Q000378:metabolism*; D014867:Water / Q000737:chemistry / Q000378:metabolism
D053583:Interleukin-1beta; D011506:Proteins; D014867:Water; D009113:Muramidase