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For: Schärer K, Morgenthaler M, Paulini R, Obst-Sander U, Banner DW, Schlatter D, Benz J, Stihle M, Diederich F. Quantification of cation-pi interactions in protein-ligand complexes: crystal-structure analysis of Factor Xa bound to a quaternary ammonium ion ligand. Angew Chem Int Ed Engl 2006;44:4400-4. [PMID: 15952226 DOI: 10.1002/anie.200500883] [Citation(s) in RCA: 90] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Number Cited by Other Article(s)
51
Mao H, Wang S, Yu P, Lv H, Xu R, Pan Y. Brønsted Acid-Catalyzed Decarboxylative Redox Amination: Formation of N-Alkylindoles from Azomethine Ylides by Isomerization. J Org Chem 2011;76:1167-9. [DOI: 10.1021/jo102218v] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
52
Di Cera E. Thrombin as an Anticoagulant. PROGRESS IN MOLECULAR BIOLOGY AND TRANSLATIONAL SCIENCE 2011;99:145-84. [DOI: 10.1016/b978-0-12-385504-6.00004-x] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
53
Complex assemblies of factors IX and X regulate the initiation, maintenance, and shutdown of blood coagulation. PROGRESS IN MOLECULAR BIOLOGY AND TRANSLATIONAL SCIENCE 2011;99:51-103. [PMID: 21238934 DOI: 10.1016/b978-0-12-385504-6.00002-6] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
54
Reisen F, Weisel M, Kriegl JM, Schneider G. Self-organizing fuzzy graphs for structure-based comparison of protein pockets. J Proteome Res 2010;9:6498-510. [PMID: 20883038 DOI: 10.1021/pr100719n] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
55
The structural basis of function in Cys-loop receptors. Q Rev Biophys 2010;43:449-99. [PMID: 20849671 DOI: 10.1017/s0033583510000168] [Citation(s) in RCA: 272] [Impact Index Per Article: 18.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
56
Vogt AD, Bah A, Di Cera E. Evidence of the E*-E equilibrium from rapid kinetics of Na+ binding to activated protein C and factor Xa. J Phys Chem B 2010;114:16125-30. [PMID: 20809655 DOI: 10.1021/jp105502c] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
57
Page MJ, Di Cera E. Combinatorial enzyme design probes allostery and cooperativity in the trypsin fold. J Mol Biol 2010;399:306-19. [PMID: 20399789 DOI: 10.1016/j.jmb.2010.04.024] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2010] [Revised: 04/12/2010] [Accepted: 04/13/2010] [Indexed: 01/05/2023]
58
Niu W, Chen Z, Bush-Pelc LA, Bah A, Gandhi PS, Di Cera E. Mutant N143P reveals how Na+ activates thrombin. J Biol Chem 2009;284:36175-36185. [PMID: 19846563 PMCID: PMC2794733 DOI: 10.1074/jbc.m109.069500] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2009] [Revised: 10/12/2009] [Indexed: 01/09/2023]  Open
59
Zögg T, Brandstetter H. Structural Basis of the Cofactor- and Substrate-Assisted Activation of Human Coagulation Factor IXa. Structure 2009;17:1669-1678. [DOI: 10.1016/j.str.2009.10.011] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2009] [Revised: 10/05/2009] [Accepted: 10/07/2009] [Indexed: 10/20/2022]
60
Whiting AL, Neufeld NM, Hof F. A tryptophan-analog host whose interactions with ammonium ions in water are dominated by the hydrophobic effect. Tetrahedron Lett 2009. [DOI: 10.1016/j.tetlet.2009.09.161] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
61
Suresh CH, Mohan N, Vijayalakshmi KP, George R, Mathew JM. Typical aromatic noncovalent interactions in proteins: A theoretical study using phenylalanine. J Comput Chem 2009;30:1392-404. [DOI: 10.1002/jcc.21162] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
62
Riemen AJ, Waters ML. Design of highly stabilized beta-hairpin peptides through cation-pi interactions of lysine and n-methyllysine with an aromatic pocket. Biochemistry 2009;48:1525-31. [PMID: 19191524 DOI: 10.1021/bi801706k] [Citation(s) in RCA: 48] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
63
Dolan MA, Keil M, Baker DS. Comparison of Composer and ORCHESTRAR. Proteins 2009;72:1243-58. [PMID: 18361454 DOI: 10.1002/prot.22022] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
64
Salonen LM, Bucher C, Banner DW, Haap W, Mary JL, Benz J, Kuster O, Seiler P, Schweizer WB, Diederich F. Cation-pi interactions at the active site of factor Xa: dramatic enhancement upon stepwise N-alkylation of ammonium ions. Angew Chem Int Ed Engl 2009;48:811-4. [PMID: 19101972 DOI: 10.1002/anie.200804695] [Citation(s) in RCA: 71] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
65
Salonen L, Bucher C, Banner D, Haap W, Mary JL, Benz J, Kuster O, Seiler P, Schweizer W, Diederich F. Kation-π-Wechselwirkungen im aktiven Zentrum von Faktor Xa: drastische Verstärkung durch stufenweise N-Alkylierung von Ammoniumionen. Angew Chem Int Ed Engl 2009. [DOI: 10.1002/ange.200804695] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
66
Torrance GM, Leader DP, Gilbert DR, Milner-White EJ. A novel main chain motif in proteins bridged by cationic groups: the niche. J Mol Biol 2008;385:1076-86. [PMID: 19038265 DOI: 10.1016/j.jmb.2008.11.007] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2008] [Revised: 11/05/2008] [Accepted: 11/07/2008] [Indexed: 12/25/2022]
67
Papaconstantinou ME, Gandhi PS, Chen Z, Bah A, Di Cera E. Na+ binding to meizothrombin desF1. Cell Mol Life Sci 2008;65:3688-97. [PMID: 18854941 PMCID: PMC2662498 DOI: 10.1007/s00018-008-8502-7] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
68
Varma S, Rempe SB. Structural transitions in ion coordination driven by changes in competition for ligand binding. J Am Chem Soc 2008;130:15405-19. [PMID: 18954053 DOI: 10.1021/ja803575y] [Citation(s) in RCA: 63] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
69
Monje P, Paleo MR, García-Río L, Sardina FJ. Determination of the Effect of Cation−π Interactions on the Stability of α-Oxy-Organolithium Compounds. J Org Chem 2008;73:7394-7. [DOI: 10.1021/jo801176d] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
70
Di Fenza A, Heine A, Koert U, Klebe G. Understanding binding selectivity toward trypsin and factor Xa: the role of aromatic interactions. ChemMedChem 2008;2:297-308. [PMID: 17191291 DOI: 10.1002/cmdc.200600185] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
71
Achieving structural diversity using the perpendicular conformation of alpha-substituted phenylcyclopropanes to mimic the bioactive conformation of ortho-substituted biphenyl P4 moieties: Discovery of novel, highly potent inhibitors of Factor Xa. Bioorg Med Chem Lett 2008;18:4118-23. [DOI: 10.1016/j.bmcl.2008.05.095] [Citation(s) in RCA: 39] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2008] [Revised: 05/21/2008] [Accepted: 05/22/2008] [Indexed: 11/18/2022]
72
Zürcher M, Diederich F. Structure-Based Drug Design: Exploring the Proper Filling of Apolar Pockets at Enzyme Active Sites. J Org Chem 2008;73:4345-61. [DOI: 10.1021/jo800527n] [Citation(s) in RCA: 88] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
73
Yang L, Manithody C, Qureshi SH, Rezaie AR. Factor Va alters the conformation of the Na+-binding loop of factor Xa in the prothrombinase complex. Biochemistry 2008;47:5976-85. [PMID: 18457426 DOI: 10.1021/bi800319r] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
74
Page MJ, Carrell CJ, Di Cera E. Engineering protein allostery: 1.05 A resolution structure and enzymatic properties of a Na+-activated trypsin. J Mol Biol 2008;378:666-72. [PMID: 18377928 DOI: 10.1016/j.jmb.2008.03.003] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2008] [Revised: 02/29/2008] [Accepted: 03/04/2008] [Indexed: 11/28/2022]
75
Abel R, Young T, Farid R, Berne BJ, Friesner RA. Role of the active-site solvent in the thermodynamics of factor Xa ligand binding. J Am Chem Soc 2008;130:2817-31. [PMID: 18266362 PMCID: PMC2761766 DOI: 10.1021/ja0771033] [Citation(s) in RCA: 525] [Impact Index Per Article: 30.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
76
Moitessier N, Englebienne P, Lee D, Lawandi J, Corbeil CR. Towards the development of universal, fast and highly accurate docking/scoring methods: a long way to go. Br J Pharmacol 2008;153 Suppl 1:S7-26. [PMID: 18037925 PMCID: PMC2268060 DOI: 10.1038/sj.bjp.0707515] [Citation(s) in RCA: 316] [Impact Index Per Article: 18.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2007] [Revised: 09/18/2007] [Accepted: 09/24/2007] [Indexed: 11/08/2022]  Open
77
Di Cera E. Thrombin. Mol Aspects Med 2008;29:203-54. [PMID: 18329094 DOI: 10.1016/j.mam.2008.01.001] [Citation(s) in RCA: 265] [Impact Index Per Article: 15.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/24/2007] [Accepted: 01/11/2008] [Indexed: 01/08/2023]
78
Vaden TD, de Boer TSJA, Simons JP, Snoek LC. Intramolecular interactions in protonated peptides: H+PheGlyGly and H+GlyGlyPhe. Phys Chem Chem Phys 2008;10:1443-7. [DOI: 10.1039/b716666d] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
79
Klärner FG, Kahlert B, Nellesen A, Zienau J, Ochsenfeld C, Schrader T. Molecular tweezer and clip in aqueous solution: unexpected self-assembly, powerful host-guest complex formation, quantum chemical 1H NMR shift calculation. J Am Chem Soc 2007;128:4831-41. [PMID: 16594720 DOI: 10.1021/ja058410g] [Citation(s) in RCA: 91] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
80
Hughes RM, Benshoff ML, Waters ML. Effects of chain length and N-methylation on a cation-pi interaction in a beta-hairpin peptide. Chemistry 2007;13:5753-64. [PMID: 17431866 DOI: 10.1002/chem.200601753] [Citation(s) in RCA: 57] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
81
Letondor C, Pordea A, Humbert N, Ivanova A, Mazurek S, Novic M, Ward TR. Artificial transfer hydrogenases based on the biotin-(strept)avidin technology: fine tuning the selectivity by saturation mutagenesis of the host protein. J Am Chem Soc 2007;128:8320-8. [PMID: 16787096 DOI: 10.1021/ja061580o] [Citation(s) in RCA: 136] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
82
Lélias-Vanderperre A, Chambron JC, Espinosa E, Terrier P, Leize-Wagner E. Macrotricycles Featuring a π-Basic Tetrahedral Cavity:  Preference for NH4+ Detected by Electrospray Ionization Mass Spectrometry. Org Lett 2007;9:2961-4. [PMID: 17608430 DOI: 10.1021/ol070498a] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
83
Dougherty DA. Cation-pi interactions involving aromatic amino acids. J Nutr 2007;137:1504S-1508S; discussion 1516S-1517S. [PMID: 17513416 DOI: 10.1093/jn/137.6.1504s] [Citation(s) in RCA: 224] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
84
Sakariassen KS, Orning L. Validation of the human tissue factor/FVIIa complex as an antithrombotic target and the discovery of a synthetic peptide. Future Cardiol 2007;3:249-62. [PMID: 19804217 DOI: 10.2217/14796678.3.3.249] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]  Open
85
Di Cera E, Page MJ, Bah A, Bush-Pelc LA, Garvey LC. Thrombin allostery. Phys Chem Chem Phys 2007;9:1291-306. [PMID: 17347701 DOI: 10.1039/b616819a] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
86
Hirsch A, Fischer F, Diederich F. Molekulare Erkennung von Phosphaten in der Strukturbiologie. Angew Chem Int Ed Engl 2007. [DOI: 10.1002/ange.200603420] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
87
Hirsch AKH, Fischer FR, Diederich F. Phosphate Recognition in Structural Biology. Angew Chem Int Ed Engl 2007;46:338-52. [PMID: 17154432 DOI: 10.1002/anie.200603420] [Citation(s) in RCA: 241] [Impact Index Per Article: 13.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
88
Brückl T, Klepper F, Gutsmiedl K, Carell T. A short and efficient synthesis of the tRNA nucleosides PreQ0 and archaeosine. Org Biomol Chem 2007;5:3821-5. [DOI: 10.1039/b713309j] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
89
Page MJ, Di Cera E. Role of Na+and K+in Enzyme Function. Physiol Rev 2006;86:1049-92. [PMID: 17015484 DOI: 10.1152/physrev.00008.2006] [Citation(s) in RCA: 227] [Impact Index Per Article: 11.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]  Open
90
Di Cera E. A structural perspective on enzymes activated by monovalent cations. J Biol Chem 2005;281:1305-8. [PMID: 16267046 DOI: 10.1074/jbc.r500023200] [Citation(s) in RCA: 94] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
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