Key Role of Active-Site Water Molecules in Bacteriorhodopsin Proton-Transfer Reactions

2008 ◽  
Vol 112 (47) ◽  
pp. 14729-14741 ◽  
Author(s):  
Ana-Nicoleta Bondar ◽  
Jerome Baudry ◽  
Sándor Suhai ◽  
Stefan Fischer ◽  
Jeremy C. Smith
1994 ◽  
Vol 226 (3-4) ◽  
pp. 275-280 ◽  
Author(s):  
Dae Won Cho ◽  
Yong Hee Kim ◽  
Minjoong Yoon ◽  
Sae Chae Jeoung ◽  
Dongho Kim

2004 ◽  
Vol 359 (1448) ◽  
pp. 1181-1190 ◽  
Author(s):  
Jeremy C. Smith ◽  
Franci Merzel ◽  
Ana-Nicoleta Bondar ◽  
Alexander Tournier ◽  
Stefan Fischer

The apparent simplicity of the water molecule belies the wide range of fascinating protein phenomena in which it participates. We review recent computer simulation work on buried, internal water molecules, discussing the thermodynamics of water molecule binding and the participation of water in proton transfer reactions. Surface water molecules are also considered, with emphasis on the modification of average solvent structure on a protein surface, the role of water in the protein dynamical ‘glass’ transition and a simplified description of the protein motions thereby activated.


2014 ◽  
Vol 70 (2) ◽  
pp. 225-229 ◽  
Author(s):  
Gustavo Portalone

Three molecular salts, benzamidinium 3-methoxybenzoate, C7H9N2+·C8H7O3−, (I), benzamidinium 4-methoxybenzoate, C7H9N2+·C8H7O3−, (II), and benzamidinium 3,4,5-trimethoxybenzoate monohydrate, C7H9N2+·C10H11O5−·H2O, (III), were formed from the proton-transfer reactions of 3-methoxy, 4-methoxy- and 3,4,5-trimethoxybenzoic acids with benzamidine (benzenecarboximidamide, benzam). Monoclinic salts (I) and (II) have a 1:1 ratio of cation to anion. In monoclinic salt (III), two cation–anion pairs and two water molecules constitute the asymmetric unit. In all three molecular salts, the amidinium fragments and the carboxylate groups are completely delocalized, and the delocalization favours the aggregation of the molecular components into nonplanar dimers with anR22(8) graph-set motif by N+—H...O−(±) charge-assisted hydrogen bonding (CAHB). Of the three molecular salts, (I) and (II) show similar conformations of the anionic components and exhibit bidimensional isostructurality, which consists of alternatingR22(8) andR46(16) rings resulting in a corrugated sheet propagated parallel to the crystallographicabplane. In molecular salt (III), theR22(8) synthon is retained but the supramolecular structure is different, due to the presence of three bulky methoxy substituents and a water molecule. The structures reported here further demonstrate the robustness ofR22(8) hydrogen-bonded synthons having the benzamidinium cation as a building block, whereas N+—H...O−hydrogen bonds external to the salt bridge contribute to the overall structure organization.


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