[Hydratation of the rubredoxin polypeptide chain from data on the spatial structure].
The hydration water distribution around the main chain protein rubredoxin has been analysed using the crystal data at high resolution obtained earlier. The analysis was based on the consideration of all nearest neighbour atoms around the N and O atoms of peptide groups. The atoms which can form hydrogen binds were the subject of final analysis. The nitrogen atom of a peptide NH group has only one vacancy for neighbours. The oxygen atom of a peptide CO group has one, two or more neighbours, some of them are oxygen-water atoms. About 27% of NH and 53% of CO peptide groups are hydrated, that corresponds to 0.12 H2O per gram of protein. A detailed analysis shows that NH and CO groups of the main chain are hydrated according to the principle of maximum possible in situ saturation of hydrogen bonds. Thus the peptide groups incorporated in the peptide hydrogen bond network were not hydrated as a rule. Consequently, for rubredoxin a pleated sheet region, some regions for the large and small main chain loops, and Fe-containing pocket are not hydrated. A method for evaluation of the main chain hydration is proposed when the coordinates of protein atoms are available.
D003460:Crystallization; D005288:Ferredoxins; D006860:Hydrogen Bonding; D008958:Models, Molecular; D010455:Peptides; D011487:Protein Conformation; D012416:Rubredoxins; D014867:Water
D005288:Ferredoxins; D010455:Peptides; D012416:Rubredoxins; D014867:Water
Gidratatsiia polipeptidnoĭ tsepi rubredoksina po dannym prostranstvennoĭ struktury.