ZMM was used as the major modeling tool in 200+ studies, including:

-              Protein modeling with MTSET-substituted cysteines (Bruhova & Zhorov, 2010)

-              Flexible ligand docking (Garden & Zhorov, 2010)

-              Docking Ca2+ ions in flexible proteins (Cheng et al., 2010)

-              L-type Ca2+ channel ?/span>with phenylalkylamines (Cheng et al. 2009)

-              L-type Ca2+ channel with dihydropyridines (Tikhonov and Zhorov, 2009)

-              Na+ channel with insecticides (Du et al., 2009)

-              Polyamine toxins in ionotropic glutamate receptors (Nelson et al., 2009)

-              Na+ channel with batrachotoxin (Wang et al., 2007)

-              Local anesthetics: access and binding in Na+ channel (Bruhova et al., 2008)

-              L-type Ca2+ channel with benzothiazepines (Tikhonov and Zhorov, 2008)

-              Slow Inactivation and ligand binding in Na+ channel (Tikhonov and Zhorov, 2007)

-              Correolide in Kv1.3 channel (Bruhova and Zhorov, 2007)

-              d-Tubocurarine in K+ channel (Rossokhin et al., 2006)

-         Mechanism of Na channel agonists (Tikhonov and Zhorov, 2005; Wang et al., 2006)

-         Local anesthetics and benzocaine in Na+ channel (Tikhonov al., 2006)

-         Predicting the pore geometry of the Shaker channel and mechanism of its block by Cd2+ (Bruhova and Zhorov, 2005). Predicted geometrical features of the channel agree with the later x-ray structure(Long et al., 2005)

-              Mapping steroids?binding site in an enzyme (Blanchet et al., 2005)

-              Modeling selectivity filter of sodium channel (Tikhonov and Zhorov, 2005)

-              Large-scale conformational transitions in a protein (Tikhonov and Zhorov, 2004)

-         Noncompetitive antagonism in a nicotinic acetylcholine receptor (Tikhonov et al., 2004). This paper shows, in particular, that a protein model made with ZMM and published in 1998 predicted important features of the experimental structure published in 2003)  

-              Simulation of antifreeze proteins at ice (Jorov et al. 2004)

-              Ligand action in voltage-gated ion channels (Zhorov and Tikhonov, 2004)

-              Block of NMDA channels (Bolshakov et al., 2003)

-              Agonist action in Ca2+ channels (Yamaguchi et al., 2003)

-              Block of glutamate receptors (Tikhonov et al., 2002)

-              L-type calcium channel with ligands (Zhorov et al., 2001)

-              Structure and function of testosterone-binding enzyme (Nahoum et al., 2001)

-              Modeling ligand-gated chloride channels with blockers (Zhorov & Bregestovski, 2000)

-              G-protein coupled receptors with ligands (Zhorov & Ananthanarayanan, 2000)

-              Structure-activity relationships of polyamine amide toxins (Tikhonov et al., 2000)

-              Systematic search for the steroid-binding site in an enzyme (Zhorov and Lin., 2000)

-              Modeling of ion channels of glutamate receptors (Tikhonov et al., 1999)

-              Modeling of collagen (Milchevski et al., 1999)

-              Nicotinic acetylcholine receptor channel with blockers (Tikhonov & Zhorov, 1998)

-              Modeling of a synthetic calcium channel with ligands (Zhorov & Ananthanarayanan, 1996)

-              Interpretation of ambiguous NMR spectra (Ananthanarayanan et al., 1996; Qi et al., 2000)

-              Conformations of opioid peptides (Zhorov & Ananthanarayanan, 1994; 1995; 1996)

-              Conformational analysis of curare alkaloids (Zhorov, 1993; Zhorov & Brovtsyna, 1993)

-              Conformation-activity relationships of cholinergic drugs (Brovtsyna N.B. et al., 1980-2003)

-              Cholinesterase substrates and inhibitors (Rozengart E.V. et al., 1975-2003)

-              Pheromones (Tsendina et al., 1989; Bykhovskaya and Zhorov, 1996)

-              Conformation-activity relationships of adrenergic drugs (Zhorov et al., 1975-1985)
















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