Effect of beta-O-glucosylation on L-Ser and L-Thr diamides: a bias toward alpha-helical conformations.
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Jesús Jiménez-Barbero | Francisco Corzana | S. Engelsen | J. L. Asensio | Søren B Engelsen | Jesús H Busto | Juan L Asensio | Jesús M Peregrina | F. Corzana | A. Avenoza | J. H. Busto | J. M. Peregrina | A Avenoza | J. Jiménez‐Barbero
[1] David A. Pearlman,et al. How is an NMR structure best defined? An analysis of molecular dynamics distance-based approaches , 1994, Journal of biomolecular NMR.
[2] T. Haselhorst,et al. Molecular recognition of sialyl Lewis(x) and related saccharides by two lectins. , 2001, Journal of the American Chemical Society.
[3] A. Andreotti,et al. SENSITIVITY OF GLYCOPEPTIDE CONFORMATION TO CARBOHYDRATE CHAIN LENGTH , 1995 .
[4] P. Kollman,et al. A Second Generation Force Field for the Simulation of Proteins, Nucleic Acids, and Organic Molecules , 1995 .
[5] Michael M Palian,et al. Glycopeptide-membrane interactions: glycosyl enkephalin analogues adopt turn conformations by NMR and CD in amphipathic media. , 2003, Journal of the American Chemical Society.
[6] Sarah M. Tschampel,et al. A hydration study of (1→4) and (1→6) linked α‐glucans by comparative 10 ns molecular dynamics simulations and 500‐MHz NMR , 2004, J. Comput. Chem..
[7] Eamonn F. Healy,et al. Development and use of quantum mechanical molecular models. 76. AM1: a new general purpose quantum mechanical molecular model , 1985 .
[8] P. Kollman,et al. How well does a restrained electrostatic potential (RESP) model perform in calculating conformational energies of organic and biological molecules? , 2000 .
[9] P. Williams,et al. Effects of glycosylation on fragments of tumour associated human epithelial mucin MUC1. , 1998, Bioorganic & medicinal chemistry.
[10] Peter A. Kollman,et al. AMBER, a package of computer programs for applying molecular mechanics, normal mode analysis, molecular dynamics and free energy calculations to simulate the structural and energetic properties of molecules , 1995 .
[11] P E Wright,et al. Defining solution conformations of small linear peptides. , 1991, Annual review of biophysics and biophysical chemistry.
[12] H. Kunz,et al. Synthesis of glycopeptides containing carbohydrate and Peptide recognition motifs. , 2000, Chemical reviews.
[13] Raymond A. Dwek,et al. Glycobiology: Toward Understanding the Function of Sugars. , 1996, Chemical reviews.
[14] K. Mann,et al. Cofactor proteins in the assembly and expression of blood clotting enzyme complexes. , 1988, Annual review of biochemistry.
[15] Shui-Tein Chen,et al. Facile solid-phase synthesis of an antifreeze glycoprotein. , 2001, Chemistry.
[16] C. Warren,et al. Conformational studies of the glycopeptide Ac-Tyr-[Man5GlcNAc-β-(1→4)GlcNAc-β-(1→Nδ)]-Asn-Leu-Thr-Ser-OBz and the constituent peptide and oligosaccharide , 2000 .
[17] V. Hruby,et al. Solid-phase synthesis of O-linked glycopeptide analogues of enkephalin. , 2001, The Journal of organic chemistry.
[18] J. Taylor‐Papadimitriou,et al. NMR-based determination of the binding epitope and conformational analysis of MUC-1 glycopeptides and peptides bound to the breast cancer-selective monoclonal antibody SM3. , 2002, European journal of biochemistry.
[19] S. Kato,et al. Molecular Dynamics Simulation with the Charge Response Kernel: Vibrational Spectra of Liquid Water and N-Methylacetamide in Aqueous Solution , 2002 .
[20] S. Kawabata,et al. The structure of (xylose)2glucose-O-serine 53 found in the first epidermal growth factor-like domain of bovine blood clotting factor IX. , 1990, The Journal of biological chemistry.
[21] Parr,et al. Development of the Colle-Salvetti correlation-energy formula into a functional of the electron density. , 1988, Physical review. B, Condensed matter.
[22] H. Scheraga,et al. Conformational analysis of the 20 naturally occurring amino acid residues using ECEPP. , 1977, Macromolecules.
[23] Jiali Gao,et al. HYBRID AB INITIO QM/MM SIMULATION OF N-METHYLACETAMIDE IN AQUEOUS SOLUTION , 1997 .
[24] T. Darden,et al. Molecular dynamics simulations of biomolecules: long-range electrostatic effects. , 1999, Annual review of biophysics and biomolecular structure.
[25] S. Kuduk,et al. Principles of mucin architecture: structural studies on synthetic glycopeptides bearing clustered mono-, di-, tri-, and hexasaccharide glycodomains. , 2002, Journal of the American Chemical Society.
[26] V. Hruby,et al. Enkephalin-based drug design: conformational analysis of O-linked glycopeptides by NMR and molecular modeling , 2000 .
[27] K. Nicolaou,et al. Adventures in Carbohydrate Chemistry: New Synthetic Technologies, Chemical Synthesis, Molecular Design, and Chemical Biology A list of abbreviations can be found at the end of this article. Telemachos Charalambous was an inspiring teacher at the Pancyprian Gymnasium, Nicosia, Cyprus. , 2001, Angewandte Chemie.
[28] V J Hruby,et al. Conformational and topographical considerations in designing agonist peptidomimetics from peptide leads. , 2000, Current medicinal chemistry.
[29] S. Danishefsky,et al. Conformational influences of glycosylation of a peptide: a possible model for the effect of glycosylation on the rate of protein folding. , 1996, Proceedings of the National Academy of Sciences of the United States of America.
[30] Glycopeptide Synthesis and the Effects of Glycosylation on Protein Structure and Activity , 2000, Chembiochem : a European journal of chemical biology.
[31] G J Strous,et al. Mucin-type glycoproteins. , 1992, Critical reviews in biochemistry and molecular biology.
[32] C. Bertozzi,et al. Synthetic glycopeptides and glycoproteins as tools for biology. , 2005, Chemical Society reviews.
[33] A. Roitberg,et al. All-atom structure prediction and folding simulations of a stable protein. , 2002, Journal of the American Chemical Society.
[34] G. Ciccotti,et al. Numerical Integration of the Cartesian Equations of Motion of a System with Constraints: Molecular Dynamics of n-Alkanes , 1977 .
[35] Y. Inoue,et al. N.m.r. study on conformation of Ac-Thr(alpha-GalNAc)-Ala-Ala-OMe as a model for mucin type glycoprotein. , 2009, International journal of peptide and protein research.
[36] Robert J. Woods,et al. Molecular Mechanical and Molecular Dynamic Simulations of Glycoproteins and Oligosaccharides. 1. GLYCAM_93 Parameter Development , 1995 .
[37] M. Gobbo,et al. Conformational investigations on glycosylated asparagine‐oligopeptides of increasing chain length , 1998, Journal of peptide science : an official publication of the European Peptide Society.
[38] Sarah M. Tschampel,et al. Effects of glycosylation on peptide conformation: a synergistic experimental and computational study. , 2004, Journal of the American Chemical Society.
[39] G. Thatcher. The Anomeric effect and associated stereoelectronic effects , 1993 .
[40] Benoît Roux,et al. An Integral Equation To Describe the Solvation of Polar Molecules in Liquid Water , 1997 .
[41] V J Hruby,et al. Design of peptides, proteins, and peptidomimetics in chi space. , 1997, Biopolymers.
[42] C. Toniolo,et al. Influence of glycosylation on the conformational preferences of folded oligopeptides , 2001 .
[43] L. Szilágyi,et al. Modified glycopeptides related to cell wall peptidoglycan: conformational studies by NMR and molecular modelling. , 2003, Bioorganic & medicinal chemistry.
[44] W. G. Kelly,et al. Glycosylation in the nucleus and cytoplasm. , 1989, Annual review of biochemistry.
[45] A. Becke. Density-functional thermochemistry. III. The role of exact exchange , 1993 .
[46] J Andrew McCammon,et al. Binding of aminoglycoside antibiotics to the small ribosomal subunit: a continuum electrostatics investigation. , 2002, Journal of the American Chemical Society.
[47] Gerhard Stock,et al. Conformational dynamics of trialanine in water. 2. Comparison of AMBER, CHARMM, GROMOS, and OPLS force fields to NMR and infrared experiments , 2003 .
[48] M. Meldal,et al. Small-scale solid-phase O-glycopeptide synthesis of linear and cyclized hexapeptides from blood-clotting factor IX containing O-(α-D-Xyl-1→3-α-D-Xyl-1→3-β-D-Glc)-L-ser , 1993 .
[49] Ad Bax,et al. Quantitative J correlation: a new approach for measuring homonuclear three-bond J(HNH.alpha.) coupling constants in 15N-enriched proteins , 1993 .
[50] W. Kisiel,et al. Identification of a disaccharide (Xyl-Glc) and a trisaccharide (Xyl2-Glc) O-glycosidically linked to a serine residue in the first epidermal growth factor-like domain of human factors VII and IX and protein Z and bovine protein Z. , 1989, The Journal of biological chemistry.
[51] W. G. Kelly,et al. Glycosylation of nuclear and cytoplasmic proteins is ubiquitous and dynamic. , 1992, Biochemical Society transactions.
[52] V. Hruby,et al. Enkephalin glycopeptide analogues produce analgesia with reduced dependence liability. , 2000, Journal of medicinal chemistry.
[53] A. Perczel,et al. Ab initio conformational space study of model compounds of O-glycosides of serine diamide. , 2002, Chemistry.
[54] S. Gnanakaran,et al. Validation of an all-atom protein force field: From dipeptides to larger peptides , 2003 .
[55] Bruce J. Berne,et al. Dynamical Fluctuating Charge Force Fields: The Aqueous Solvation of Amides , 1996 .
[56] G. Hart,et al. Specific isolation of O-linked N-acetylglucosamine glycopeptides from complex mixtures. , 1995, Analytical biochemistry.
[57] S. Canuto,et al. The electronic spectrum of N-methylacetamide in aqueous solution : a sequential Monte Carlo/quantum mechanical study , 2001 .
[58] J. Ponder,et al. Force fields for protein simulations. , 2003, Advances in protein chemistry.
[59] L. Otvos,et al. Synthesis, conformation and T-helper cell stimulation of an O-linked glycopeptide epitope containing extended carbohydrate side-chains. , 2002, Bioorganic & medicinal chemistry.
[60] M. Carafa,et al. Structural features of model glycopeptides in solution and in membrane phase: a spectroscopic and molecular mechanics investigation. , 2002, Biopolymers.
[61] O. Seitz,et al. Structural Study on O-Glycopeptides: Glycosylation-Induced Conformational Changes of O-GlcNAc, O-LacNAc, O-Sialyl-LacNAc, and O-Sialyl-Lewis-X Peptides of the Mucin Domain of MAdCAM-1 , 1999 .
[62] O. Seitz,et al. Glycosylation of Threonine of the Repeating Unit of RNA Polymerase II with β-Linked N-Acetylglucosame Leads to a Turnlike Structure , 1998 .
[63] G. Fasman,et al. Synthesis and conformational analysis of N‐glycopeptides. II. CD, molecular dynamics, and nmr spectroscopic studies on linear N‐glycopeptides , 1993, Biopolymers.
[64] R. Dwek,et al. Concepts and principles of O-linked glycosylation. , 1998, Critical reviews in biochemistry and molecular biology.
[65] Carol M. Taylor. Glycopeptides and glycoproteins: Focus on the glycosidic linkage , 1998 .
[66] N. Jacobsen,et al. O-Linked glycopeptides retain helicity in water. , 2001, The journal of peptide research : official journal of the American Peptide Society.
[67] S. Engelsen,et al. Hydration of the amylopectin branch point. Evidence of restricted conformational diversity of the alpha-(1-->6) linkage. , 2004, Journal of the American Chemical Society.
[68] Matthias Buck,et al. Hydrogen Bond Energetics: A Simulation and Statistical Analysis of N-Methyl Acetamide (NMA), Water, and Human Lysozyme† , 2001 .
[69] R. Haltiwanger,et al. O-glycosylation of EGF repeats: identification and initial characterization of a UDP-glucose: protein O-glucosyltransferase. , 2002, Glycobiology.
[70] C. Andersson,et al. The mean hydration of carbohydrates as studied by normalized two-dimensional radial pair distributions. , 1999, Journal of molecular graphics & modelling.
[71] K. Nicolaou,et al. Abenteuer in der Kohlenhydratchemie: Synthesestrategien, Synthesemethoden, Moleküldesign und biologische Chemie , 2001 .
[72] B. Imperiali,et al. Conformational Switching by Asparagine-Linked Glycosylation , 1997 .
[73] P. Bouř,et al. A complete set of NMR chemical shifts and spin-spin coupling constants for L-Alanyl-L-alanine zwitterion and analysis of its conformational behavior. , 2005, Journal of the American Chemical Society.