Matrix Metalloproteinases, enzymes structures

In a study conducted by Szardenings et various combinatorial libraries of DPKs scaffolds were created to design and evaluate the activity of DPKs as inhibitors of the matrix metalloproteinases, namely, collegenase-1 and gelatinase B. This study created structure-activity relationships (SAR) for side chains attached to a DPK core structure. These enzymes are therapeutic targets with indications in the treatment of cancer, arthritis, autoimmunity, and cardiovascular disease. 

To further extend the utility of structural methods, researchers compare solid state X-ray crystallographic and solution-state NMR structures to define important differences. For instance, the Bertini group has studied the enzyme matrix metalloproteinase 12 (MMP12), in the presence of its inhibitors. Matrix metalloproteinases (MMPs) are involved in extracellular matrix degradation, a fundamental step in tissue remodeling and repair. There are a great variety of enzymes of this type, the one studied here is one of many found in humans. Most MMPs have three domains (1) a prodomain that is removed... 

Matrix metalloproteinase structural studies of the P -side inhibitors to date show a common set of inhibitor-enzyme interactions. This can be attributed primarily to the strong directional zinc-binding forces. Further stabilizing forces from the backbone hydrogen-bonding patterns common to a (3 sheet allow for minor adjustments due to the zinc interactions to be made while maintaining a common pharmacophore. 

G. F. Terp, I. T. Christensen, F. S. Jorgensen, Structural differences of matrix metalloproteinases. Homology modeling and energy minimizahon of enzyme-substrate complexes,/. Biomol. Struct. Dynam. 2000, 37, 933-946. 

Reactivity is not limited to direct addition to the phenoxyl ring structure, and reactions with thiols, amines and olefmic compounds have been reported. Both HOBr and HOCl can elicit oxidation of cysteine residues, where oxidation of the thiol moiety to a sulphinic acid is associated with activation of the latent form of matrix metalloproteinase-7 [111]. Higher doses of HOCl cause inactivation of the enzyme through site-specific modification of tryptophan and the adjacent glycine to yield an unknown product that lacks four mass units [112]. 

Signal transduction enzyme inhibition assays guided the isolation of two novel hybrid polyketide-terpenoid metabolites from a Penicillium sp. growing in the deepest waters (>750 ft) of Berkeley Pit Lake [9], Their structures were deduced by spectroscopic analysis and confirmed by single crystal x-ray analysis on berkeleydione (13). Both compounds inhibited signal transduction enzymes caspase-1 and matrix metalloproteinase-3. Berkeleydione (13) was also active against non-small cell lung cancer in NCI s 60 cell line anti-tumor screen. 

Many of the early examples of maerocyeles in drug discovery relied on these classical reaction types for the formation of the ring and they remain in regular use. This was due, in part, to the peptidomimetic nature of many of these structures, which often were targeted at protease enzyme inhibition, and thus lent themselves readily to macrolactamization for amide bond formation or macrolactonization for cyclic depsipeptide-like compounds. Representative examples of these two general transformations are shown in Scheme 11.1 (BOP (benzotriazol-l-ylo5ytris(dimethylamino)-phosphonium hexafluorophosphate, Castro s reagent), EDC (l-ethyl-3-(3-dimethylamino-propyl)-carbodiimide), DMAP (4-dimethylamino-pyridine)) for the matrix metalloproteinase (MMP) inhibitor template 2 and the renin inhibitor scaffold 4. °... 

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