Keyword search (4,163 papers available)

"English AM" Authored Publications:

Title Authors PubMed ID
1 Modeling CH sub 3 /sub SOH-aromatic complexes to probe cysteine sulfenic acid-aromatic interactions in proteins Orabi EA; English AM; 40994121
CHEMBIOCHEM
2 Modeling predicts facile release of nitrite but not nitric oxide from the thionitrate CH3SNO2 with relevance to nitroglycerin bioactivation Parmar V; Orabi EA; English AM; Peslherbe GH; 39738238
CERMM
3 Theoretical evidence that Cu(I) complexation promotes degradation of S-nitrosothiols Toubin C; Yeung DY; English AM; Peslherbe GH; 12475301
CERMM
4 Effective simulations of gas diffusion through kinetically accessible tunnels in multisubunit proteins: O2 pathways and escape routes in T-state deoxyhemoglobin Shadrina MS; English AM; Peslherbe GH; 22690872
CERMM
5 Structural determination and anticholinesterase assay of C-glycosidic ellagitannins from Lawsonia inermis leaves: A study supported by DFT calculations and molecular docking Orabi MAA; Orabi EA; Abdel-Sattar ES; English AM; Hatano T; Elimam H; 36423882
CHEMBIOCHEM
6 Modeling Shows that Rotation about the Peroxide O-O Bond Assists Protein and Lipid Functional Groups in Discriminating between H2O2 and H2O Orabi EA; English AM; 33356279
CHEMBIOCHEM
7 Sublethal Paraquat Confers Multidrug Tolerance in Pseudomonas aeruginosa by Inducing Superoxide Dismutase Activity and Lowering Envelope Permeability. Martins D, McKay GA, English AM, Nguyen D 33101252
CHEMBIOCHEM
8 Ctt1 catalase activity potentiates antifungal azoles in the emerging opportunistic pathogen Saccharomyces cerevisiae. Martins D, Nguyen D, English AM 31235707
CHEMBIOCHEM
9 Derivatization of yeast cytochrome c peroxidase with pentaammineruthenium(III). Fox T, English AM, Gibbs BF 8199229
CHEMBIOCHEM
10 Mass spectral analysis of protein-based radicals using DBNBS. Nonradical adduct formation versus spin trapping. Filosa A, English AM 11262405
CHEMBIOCHEM
11 Heme nitrosylation of deoxyhemoglobin by s-nitrosoglutathione requires copper. Romeo AA, Capobianco JA, English AM 11970954
CHEMBIOCHEM
12 S-nitrosation of Ca(2+)-loaded and Ca(2+)-free recombinant calbindin D(28K) from human brain. Tao L, Murphy ME, English AM 11994015
CHEMBIOCHEM
13 Different pathways of radical translocation in yeast cytochrome c peroxidase and its W191F mutant on reaction with H(2)O(2) suggest an antioxidant role. Tsaprailis G, English AM 12589560
CHEMBIOCHEM
14 Mechanism of S-nitrosation of recombinant human brain calbindin D28K. Tao L, English AM 12641465
CHEMBIOCHEM
15 Quantitative analysis of the yeast proteome by incorporation of isotopically labeled leucine. Jiang H, English AM 12645890
CHEMBIOCHEM
16 Scavenging with TEMPO* to identify peptide- and protein-based radicals by mass spectrometry: advantages of spin scavenging over spin trapping. Wright PJ, English AM 12848573
CHEMBIOCHEM
17 ESI-MS and FTIR studies of the interaction between the second PDZ domain of hPTP1E and target peptides. Papp R, Ekiel I, English AM 12870871
CHEMBIOCHEM
18 Superoxide dismutase targets NO from GSNO to Cysbeta93 of oxyhemoglobin in concentrated but not dilute solutions of the protein. Romeo AA, Capobianco JA, English AM 14624585
CHEMBIOCHEM
19 Protein S-glutathiolation triggered by decomposed S-nitrosoglutathione. Tao L, English AM 15049710
CHEMBIOCHEM
20 Mass spectrometric analysis of nitroxyl-mediated protein modification: comparison of products formed with free and protein-based cysteines. Shen B, English AM 16229492
CHEMBIOCHEM
21 Hemoglobin S-nitrosation on oxygenation of nitrite/deoxyhemoglobin incubations is attenuated by methemoglobin. Laterreur J, English AM 17889368
CHEMBIOCHEM
22 ESI-MS quantitation of iron as its 4-(2-pyridylazo)resorcinol (PAR) complex: application to pharmaceutical tablets containing iron oxide pigment. Susanto D, English AM, Sharma R, Kwong E 21520348
CHEMBIOCHEM
23 SOD1 oxidation and formation of soluble aggregates in yeast: relevance to sporadic ALS development. Martins D, English AM 24936435
CHEMBIOCHEM
24 Targeted proteomics identify metabolism-dependent interactors of yeast cytochrome c peroxidase: implications in stress response and heme trafficking. Kathiresan M, English AM 26980054
CHEMBIOCHEM
25 Expanding the range of binding energies and oxidizability of biologically relevant S-aromatic interactions: imidazolium and phenolate binding to sulfoxide and sulfone Orabi EA; English AM; 31214677
CHEMBIOCHEM
26 Evaluation of D10-Leu metabolic labeling coupled with MALDI-MS analysis in studying the response of the yeast proteome to H2O2 challenge Jiang H; English AM; 17022625
CBAMS
27 Reduction and S-nitrosation of the neuropeptide oxytocin: implications for its biological function Roy JF; Chrétien MN; Woodside B; English AM; 17692543
CBAMS
28 LC-MS/MS suggests that hole hopping in cytochrome c peroxidase protects its heme from oxidative modification by excess H2O2. Kathiresan M, English AM 28451256
CHEMBIOCHEM
29 LC-MS/MS Proteoform Profiling Exposes Cytochrome c Peroxidase Self-Oxidation in Mitochondria and Functionally Important Hole Hopping from Its Heme Kathiresan M; English AM; 30145880
CHEMBIOCHEM
30 Predicting structural and energetic changes in Met-aromatic motifs on methionine oxidation to the sulfoxide and sulfone Orabi EA; English AM; 30168822
CHEMBIOCHEM
31 Superoxide dismutase activity confers (p)ppGpp-mediated antibiotic tolerance to stationary-phase Pseudomonas aeruginosa. Martins D, McKay G, Sampathkumar G, Khakimova M, English AM, Nguyen D 30201715
CHEMBIOCHEM

 

Title:Predicting structural and energetic changes in Met-aromatic motifs on methionine oxidation to the sulfoxide and sulfone
Authors:Orabi EAEnglish AM
Link:https://pubmed.ncbi.nlm.nih.gov/30168822/
DOI:10.1039/c8cp03277g
Publication:Physical chemistry chemical physics : PCCP
Keywords:
PMID:30168822 Category:Phys Chem Chem Phys Date Added:2019-05-31
Dept Affiliation: CHEMBIOCHEM
1 Center for Research in Molecular Modeling (CERMM), Quebec Network for Research on Protein Function, Engineering, and Applications (PROTEO), and Department of Chemistry and Biochemistry, Concordia University, 7141 Sherbrooke Street West, Montréal, Québec H4B 1R6, Canada. ann.english@concordia.ca.

Description:

Noncovalent interactions between Met and aromatic residues define a common Met-aromatic motif in proteins. Met oxidation to MetOn (n = 1 sulfoxide, n = 2 sulfone) alters protein stability and function. To predict the chemical and physical consequences of such oxidations, we modeled the chemistry and redox properties of MetOn-aromatic complexes in depth for comparison with our Met-aromatic models (E. A. Orabi and A. M. English, J. Phys. Chem. B, 2018, 122, 3760). We describe here ab initio quantum mechanical calculations at the MP2(full)/6-311++G(d,p) level of theory on complexes of MetOn (n = 1, 2; modeled by Me2SO and Me2SO2) with models of the side-chains of Phe (benzene, toluene), Trp (indole, 3-methylindole), Tyr (phenol, 4-methylphenol) and His (imidazole, 4-methylimidazole). Binding energies of the global minimum conformers (-3.4 to -11.9 kcal mol-1) indicate that the gas-phase Me2SOn-aromatics are 40-115% more stable than the Me2S-aromatics. Binding of S between the edge and face of the aromatic ring is favored in most complexes as it accommodates both robust s- and p-type H-bonding. Interactions involving the s-holes on the S atoms (s-holepar and s-holeNar/Oar), as well as Sp interactions in the sulfoxides, contribute to complex stability. Complexation modulates the ionization potential (IP) of the interacting fragments with the binding geometry dictating the center oxidized in the Me2SO-aromatics whereas the aromatic is oxidized in the Me2SO2 complexes because of the sulfone's high IP. Potentials of mean force reveal binding free energies of -0.2 to -0.7 kcal mol-1 in bulk water, which indicates that the Me2SOn-aromatics are up to 80% less stable than the corresponding aqueous Me2S-aromatics. Molecular dynamics simulations predict that Me2SOn preferentially interacts with the ring face and expose the dominance of p- vs. s-type H-bonding in the hydrated complexes as found for the Me2S-aromatics. Our modeling will inform how Met/MetOn-aromatic motifs are determinants of redox-induced changes in proteins.





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