Statements in which the resource exists as a subject.
PredicateObject
rdf:type
lifeskim:mentions
pubmed:issue
52
pubmed:dateCreated
2006-12-27
pubmed:abstractText
The extent to which water is present within apolar cavities in proteins remains unclear. In the case of interleukin-1beta (IL-1beta), four independent structures solved by x-ray crystallography indicate that water is not present in the central apolar cavity. In contrast, results from NMR spectroscopy suggest that water has high occupancy within the cavity but is positionally disordered, making it undetectable by standard crystallographic methods. A theoretically based crystallographic-phase refinement technique also suggested that there was the equivalent of two fully occupied water molecules within the apolar cavity. To resolve these discrepancies we sought to obtain an experimentally phased electron density map that was free of possible bias caused by mathematical modeling of the protein or the solvent. By combining native diffraction data with multiple wavelength anomalous data from a platinum derivative, accurate phases were obtained. Using these experimental phases, we estimate that occupancy of the apolar cavity in IL-1beta by solvent is close or equal to zero. Polar cavities in the protein that contain ordered solvent molecules serve as internal controls.
pubmed:grant
pubmed:commentsCorrections
http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-11567162, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-12554939, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-14404936, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-1463720, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-15299354, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-15299374, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-1553379, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-1553543, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-15572444, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-15663946, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-16269539, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-2001363, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-2144643, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-2383553, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-2585509, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-2602367, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-3023078, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-3172231, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-3718947, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-427100, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-7892604, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-7987217, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-8052849, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-8073031, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-8254677, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-8510154, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-8525384, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-8539602, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-9048378, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-9162944, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-9379924, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-9514271, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-9874779, http://linkedlifedata.com/resource/pubmed/commentcorrection/17179045-9878446
pubmed:language
eng
pubmed:journal
pubmed:citationSubset
IM
pubmed:chemical
pubmed:status
MEDLINE
pubmed:month
Dec
pubmed:issn
0027-8424
pubmed:author
pubmed:issnType
Print
pubmed:day
26
pubmed:volume
103
pubmed:owner
NLM
pubmed:authorsComplete
Y
pubmed:pagination
19749-53
pubmed:dateRevised
2009-11-18
pubmed:meshHeading
pubmed:year
2006
pubmed:articleTitle
Determination of solvent content in cavities in IL-1beta using experimentally phased electron density.
pubmed:affiliation
Institute of Molecular Biology, Howard Hughes Medical Institute, University of Oregon, Eugene, OR 97403-1229, USA.
pubmed:publicationType
Journal Article, Research Support, N.I.H., Extramural