Methylglyoxal synthetase,enol-pyruvaldehyde,glutathione and the glyoxalase system

enol-Pyruvaldehyde (ePY or 2-hydroxypropenal, O=C(H)-C(OH)=CH(2)) a transient intermediate in the alkaline decomposition of the triosephosphates to methylglyoxal is now observed by UV and (1)H NMR spectroscopy as the immediate product of the methylglyoxal synthetase (MGS) reaction: dihydroxyacetone-P --> P(i) + ePY --> methylglyoxal (MG). Analysis of ePY formed from 1-(13)C- and (1R, 3S) -[1,3-(2)H]-DHAP establishes the stereochemical course of its formation by MGS. Its rate of ketonization is much too slow to be in the sequence required for the assay of MGS by coupling of the MG produced to glyoxalase I (Glx I): MG + glutathione (GSH) --> (S)-lactylglutathione (D-LG). Instead, ketonization occurs by way of the hemithioacetal (HTA) formed between ePY and GSH, and could be either an enzymatic function of Glx I or occur nonenzymatically at an activated rate. Enzymatic ketonization was ruled out because the methyl group of D-LG formed from specifically labeled ePY is achiral. Chemical ketonization of ePY is activated by general bases, such as acetate, and by thiols such as GSH and 2-mercaptoethanol, which disrupt its stabilizing double bond conjugation as hemithioacetal (HTA) adducts. 2-Mercaptoacetate combines both functions, acting as the HTA adduct of ePY with the appended carboxylate group presumably positioned to promote abstraction of the enol proton and protonation of the enolate carbon at an accelerated rate. In the MGS-Glx I system (dihydroxyacetone-P --> ePY, ePY + GSH --> GS-ePY, GS-ePY --> GS-MG, GS-MG --> D-LG), the nonenzymatic 2nd and 3rd steps describe the catalytic role of GSH in the critical ketonization process and set the stage for its participation in the glyoxalase system.     

Self-assembly of gold(I) rings and reversible formation of organometallic [2]catenanes

The reaction of the digold(I) diacetylide [(AuCCCH2OC6H4)2CMe2] with diphosphane ligands can lead to formation of either macrocyclic ring complexes or [2]catenanes by self-assembly. This gives an easy route to rare organometallic [2]catenanes, and the effect of the diphosphane ligand on the selectivity of self-assembly is studied. With diphosphane ligands Ph2P(CH2)xPPh2, the simple ring complex [Au2[(CCCH2OC6H4)2CMe2](Ph2P(CH2)xPPh2)] is formed selectively when x = 2, but the [2]catenanes [Au2[(CCCH2OC6H4)2CMe2](Ph2P(CH2)xPPh2)]2 are formed when x = 4 or 5. When x = 3, a mixture of the simple ring and [2]catenane is formed, along with the "double-ring" complex, [Au4[(CCCH2OC6H4)2CMe2]2(Ph2P(CH2)3PPh2)2] and a "hexamer" Au2[(CCCH2OC6H4)2CMe2](Ph2P(CH2)3PPh2)]6] whose structure is not determined. A study of the equilibria between these complexes by solution NMR techniques gives insight into the energetics and mechanism of [2]catenane formation. When the oligomer [(AuCCCH2OC6H4)2CMe2] was treated with a mixture of two diphosphane ligands, or when two [2]catenane complexes [[Au2[(CCCH2OC6H4)2CMe2](diphosphane)]2] were allowed to equilibrate, only the symmetrical [2]catenanes were formed. The diphosphanes Ph2PCCPPh2, trans-[Ph2PCH=CHPPh2] and (Ph2PC5H4)2Fe give the corresponding ring complexes [Au2[(CCCH2OC6H4)2CMe2](diphosphane)], and the chiral, unsymmetrical diacetylide [Au2[(CCCH2OC6H4C(Me)(CH2CMe2)C6H3OCH2CC)] gives macrocyclic ring complexes with all diphosphane ligands Ph2P(CH2)xPPh2 (x = 2-5).     

DOCK 4.0: Search strategies for automated molecular docking of flexible molecule databases

In this paper we describe the search strategies developed for docking flexible molecules to macomolecular sites that are incorporated into the widely distributed DOCK software, version 4.0. The search strategies include incremental construction and random conformation search and utilize the existing Coulombic and Lennard-Jones grid-based scoring function. The incremental construction strategy is tested with a panel of 15 crystallographic testcases, created from 12 unique complexes whose ligands vary in size and flexibility. For all testcases, at least one docked position is generated within 2 Å of the crystallographic position. For 7 of 15 testcases, the top scoring position is also within 2 Å of the crystallographic position. The algorithm is fast enough to successfully dock a few testcases within seconds and most within 100 s. The incremental construction and the random search strategy are evaluated as database docking techniques with a database of 51 molecules docked to two of the crystallographic testcases. Incremental construction outperforms random search and is fast enough to reliably rank the database of compounds within 15 s per molecule on an SGI R10000 cpu.