Ion hydration: Implications for cellular function, polyelectrolytes, and protein crystallization

Biophysical Chemistry

Volumn 119, Issue 3, 2006, Pages 271-281

  Collins, Kim D ^a  

^a UNIVERSITY OF MARYLAND SCHOOL OF MEDICINE   (United States)

Author keywords

Calcium; Hofmeister series; Ion hydration; Law of Matching Water Affinities; Magnesium; Polyelectrolyte; Protein crystallization

Indexed keywords

AMMONIA; ANION; BARIUM ION; BERYLLIUM; CALCIUM ION; CATION; CESIUM ION; CHELATE; FORMIC ACID; LITHIUM ION; MAGNESIUM ION; NUCLEIC ACID; PERCHLORATE; PHOSPHATE; POLYELECTROLYTE; POLYMER; POTASSIUM ION; PROTON; SODIUM ION; WATER;

BINDING AFFINITY; BINDING SITE; CELL COMPOSITION; CELL FUNCTION; CELL LEVEL; CRYSTALLIZATION; CYTOSOL; DISSOCIATION; HUMAN; HYDRATION; MACROMOLECULE; MOLECULAR DYNAMICS; MOLECULAR INTERACTION; NONHUMAN; PRIORITY JOURNAL; PROTEIN MODIFICATION; REVIEW;

CRYSTALLIZATION; CYTOSOL; IONS; NUCLEIC ACIDS; PROTEINS; WATER;

EID: 32044463112     PISSN: 03014622     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.bpc.2005.08.010     Document Type: Review

References (108)

1. M.E. Maguire, and J.A. Cowan Magnesium chemistry and biochemistry Biometals 15 2002 203 210
2. J.A. Cowan The Biological Chemistry of Magnesium 1995 VCH New York
3. J.J.R. Frausto da Silva, and R.J.P. Williams The Biological Chemistry of the Elements. The Inorganic Chemistry of Life 1991 Clarendon Press Oxford
4. S. Forsen, and J. Kordel I. Bertini H.B. Gray S.J. Lippard J.S. Valentine Calcium in Biological Systems Bioinorganic Chemistry 1994 University Science Books Mill Valley, CA 107 166
5. R.J.P. Williams E. Carafoli C. Klee Calcium: The Developing Role of its Chemistry in Biological Evolution Calcium as a Cellular Regulator 1999 Oxford University Press New York 3 27
6. K.D. Collins Charge density-dependent strength of hydration and biological structure Biophys. J. 72 1997 65 76
7. K.D. Collins Ions from the Hofmeister series and osmolytes: effects on proteins in solution and in the crystallization process Methods 34 2004 300 311
8. G.A. Krestov Thermodynamics of Solvation: Solution and Dissolution, Ions and Solvents, Structure and Energetics 1991 Horwood New York
9. J.B. Robinson Jr., J.M. Strottmann, and E. Stellwagen Prediction of neutral salt elution profiles for affinity chromatography Proc. Natl. Acad. Sci. U. S. A. 78 1981 2287 2291
10. M.Y. Kiriukhin, and K.D. Collins Dynamic hydration numbers for biologically important ions Biophys. Chem. 99 2002 155 168
11. F.A. Cotton, G. Wilkinson, and P.L. Gaus Basic Inorganic Chemistry 1995 John Wiley and Sons New York
12. J.E. Enderby Electrolyte Monograph 1993 H.H. Wills Physics Laboratory Bristol, UK (Monograph)
13. J. Burgess Ions in Solution. Basic Principles of Chemical Interactions 1999 Horwood Publishing Chichester
14. J.B. West Physiological Basis of Medical Practice twelfth edition 1990 Williams and Wilkens Baltimore 410
15. G.M. Sainsbury The distribution of ammonia between hepatocytes and extracellular fluid Biochim. Biophys. Acta 631 1980 305 316
16. D.T. Richens The Chemistry of Aqua Ions 1997 John Wiley and Sons New York
17. J.J.R. Frausto da Silva, and R.J.P. Williams The Biological Chemistry of the Elements. The Inorganic Chemistry of Life 1991 Clarendon Press Oxford 244 245
18. C.L. Perrin, and R.K. Gipe Rotation and solvation of ammonium ion Science 238 1987 1393 1394
19. K.D. Kumble, and A. Kornberg Inorganic polyphosphate in mammalian cells and tissues J. Biol. Chem. 270 1995 5818 5822
20. E.E. Strehler, and M. Treiman Calcium pumps of plasma membrane and cell interior Curr. Mol. Med. 4 2004 323 335
21. J.K. Lanyi Salt-dependent properties of proteins from extremely halophilic bacteria Bacteriol. Rev. 38 1974 272 290
22. J.A. Dean Lange's Handbook of Chemistry 1992 McGraw-Hill New York
23. J.D. Horisberger Recent insights into the structure and mechanism of the sodium pump Physiology (Bethesda) 19 2004 377 387
24. J. Wolff, D.L. Sackett, and L. Knipling Cation selective promotion of tubulin polymerization by alkali metal chlorides Protein Sci. 5 1996 2020 2028
25. P. Anderson, and W. Bauer Supercoiling in closed circular DNA: dependence upon ion type and concentration Biochemistry 17 1978 594 601
26. A. Chan, R. Kilkuskie, and S. Hanlon Correlations between the duplex winding angle and the circular dichroism spectrum of calf thymus DNA Biochemistry 18 1979 84 91
27. J.I. Bregman Cation exchange processes Ann. N. Y. Acad. Sci. 57 1954 125 143
28. C. De Stefano, D. Milea, A. Pettignano, and S. Sammartano Speciation of phytate ion in aqueous solution. Alkali metal complex formation in different ionic media Anal. Bioanal. Chem. 376 2003 1030 1040
29. J.J. Day-Storms, S. Niranjanakumari, and C.A. Fierke Ionic interactions between PRNA and P protein in Bacillus subtilis RNase P characterized using a magnetocapture-based assay RNA 10 2004 1595 1608
30. K. Inouye, K. Kuzuya, and B. Tonomura Effect of salts on the solubility of thermolysin: a remarkable increase in the solubility as well as the activity by the addition of salts without aggregation or dispersion of thermolysin J. Biochem. (Tokyo) 123 1998 847 852
31. H.J. Guttman, S. Cayley, M. Li, C.F. Anderson, and M.T. Record Jr. K(+)-ribosome interactions determine the large enhancements of 39K NMR transverse relaxation rates in the cytoplasm of Escherichia coli K-12 Biochemistry 34 1995 1393 1404
32. D.J. Klein, P.B. Moore, and T.A. Steitz The contribution of metal ions to the structural stability of the large ribosomal subunit RNA 10 2004 1366 1379
33. J.A. Beebe, J.C. Kurz, and C.A. Fierke Magnesium ions are required by Bacillus subtilis ribonuclease P RNA for both binding and cleaving precursor tRNAAsp Biochemistry 35 1996 10493 10505
34. D. Asthagiri, M.R. Schure, and A.M. Lenhoff Calculation of hydration effects in the binding of anionic ligands to basic proteins J. Phys. Chem., B 104 2000 8753 8761
35. D.R. Coombe, and W.C. Kett Heparan sulfate-protein interactions: therapeutic potential through structure-function insights Cell. Mol. Life Sci. 62 2005 410 424
36. M. Zorko, and U. Langel Cell-penetrating peptides: mechanism and kinetics of cargo delivery Adv. Drug Deliv. Rev. 57 2005 529 545
37. N.I. Tarasova, R. Seth, S.G. Tarasov, T. Kosakowska-Cholody, C.A. Hrycyna, M.M. Gottesman, and C.J. Michejda Transmembrane inhibitors of P-glycoprotein, an ABC transporter J. Med. Chem. 48 2005 3768 3775
38. H. Suga, J.A. Cowan, and J.W. Szostak Unusual metal ion catalysis in an acyl-transferase ribozyme Biochemistry 37 1998 10118 10125
39. A. Sreedhara, and J.A. Cowan Structural and catalytic roles for divalent magnesium in nucleic acid biochemistry Biometals 15 2002 211 223
40. D.E. Draper, D. Grilley, and A.M. Soto Ions and RNA folding Annu. Rev. Biophys. Biomol. Struct. 34 2005 221 243
41. J.H. Cate, R.L. Hanna, and J.A. Doudna A magnesium ion core at the heart of a ribozyme domain Nat. Struct. Biol. 4 1997 553 558
42. + ions slightly reorient stems I and II of the hammerhead ribozyme to increase the probability of formation of the catalytic core Biochemistry 42 2003 9924 9936
43. A.M. Pyle Metal ions in the structure and function of RNA J. Biol. Inorg. Chem. 7 2002 679 690
44. J.A. Subirana, and M. Soler-Lopez Cations as hydrogen bond donors: a view of electrostatic interactions in DNA Annu. Rev. Biophys. Biomol. Struct. 32 2003 27 45
45. +-polynucleotide interactions The Biological Chemistry of Magnesium 1995 VCH Publishers New York 85 110
46. R. Ahmad, H. Arakawa, and H.A. Tajmir-Riahi A comparative study of DNA complexation with Mg(II) and Ca(II) in aqueous solution: major and minor grooves bindings Biophys. J. 84 2003 2460 2466
47. R.S. Jope Lithium and GSK-3: one inhibitor, two inhibitory actions, multiple outcomes Trends Pharmacol. Sci. 24 2003 441 443
48. D.M. Chuang, R.W. Chen, E. Chalecka-Franaszek, M. Ren, R. Hashimoto, V. Senatorov, H. Kanai, C. Hough, T. Hiroi, and P. Leeds Neuroprotective effects of lithium in cultured cells and animal models of diseases Bipolar. Disord. 4 2002 129 136
49. X. Li, G.N. Bijur, and R.S. Jope Glycogen synthase kinase-3beta, mood stabilizers, and neuroprotection Bipolar. Disord. 4 2002 137 144
50. V. Villeret, S. Huang, H.J. Fromm, and W.N. Lipscomb Crystallographic evidence for the action of potassium, thallium, and lithium ions on fructose-1,6-bisphosphatase Proc. Natl. Acad. Sci. U. S. A. 92 1995 8916 8920
51. T.P. Taylor, M. Ding, D.S. Ehler, T.M. Foreman, J.P. Kaszuba, and N.N. Sauer Beryllium in the environment: a review J. Environ. Sci. Health A Tox. Hazard. Subst. Environ. Eng. 38 2003 439 469
52. W.J. Ryves, R. Dajani, L. Pearl, and A.J. Harwood Glycogen synthase kinase-3 inhibition by lithium and beryllium suggests the presence of two magnesium binding sites Biochem. Biophys. Res. Commun. 290 2002 967 972
53. B.L. Scott, Z. Wang, B.L. Marrone, and N.N. Sauer Potential binding modes of beryllium with the class II major histocompatibility complex HLA-DP: a combined theoretical and structural database study J. Inorg. Biochem. 94 2003 5 13
54. H. Cho, W. Wang, R. Kim, H. Yokota, S. Damo, S.H. Kim, D. Wemmer, S. Kustu, and D. Yan BeF(3)(-) acts as a phosphate analog in proteins phosphorylated on aspartate: structure of a BeF(3)(-) complex with phosphoserine phosphatase Proc. Natl. Acad. Sci. U. S. A. 98 2001 8525 8530
55. J.H. Ha, M.W. Capp, M.D. Hohenwalter, M. Baskerville, and M.T. Record Jr. Thermodynamic stoichiometries of participation of water, cations and anions in specific and non-specific binding of lac repressor to DNA. Possible thermodynamic origins of the "glutamate effect" on protein-DNA interactions J. Mol. Biol. 228 1992 252 264
56. S.C. Kowalczykowski, N. Lonberg, J.W. Newport, and P.H. von Hippel Interactions of bacteriophage T4-coded gene 32 protein with nucleic acids: I. Characterization of the binding interactions J. Mol. Biol. 145 1981 75 104
57. L.B. Overman, W. Bujalowski, and T.M. Lohman Equilibrium binding of Escherichia coli single-strand binding protein to single-stranded nucleic acids in the (SSB)65 binding mode. Cation and anion effects and polynucleotide specificity Biochemistry 27 1988 456 471
58. M. Ries-Kautt, and A. Ducruix Inferences drawn from physicochemical studies of crystallogenesis and precrystalline state Methods Enzymol. 276 1997 23 59
59. M.W. Washabaugh, and K.D. Collins The systematic characterization by aqueous column chromatography of solutes which affect protein stability J. Biol. Chem. 261 1986 12477 12485
60. Z.Y. Zhu, and S. Karlin Clusters of charged residues in protein three-dimensional structures Proc. Natl. Acad. Sci. U. S. A. 93 1996 8350 8355
61. P.L. de Haseth, T.M. Lohman, and M.T. Record Jr. Nonspecific interaction of lac repressor with DNA: an association reaction driven by counterion release Biochemistry 16 1977 4783 4790
62. C.F. Anderson, and M.T. Record Jr. Salt-nucleic acid interactions Annu. Rev. Phys. Chem. 46 1995 657 700
63. V.L. Murthy, and G.D. Rose Is counterion delocalization responsible for collapse in RNA folding? Biochemistry 39 2000 14365 14370
64. B. Schneider, K. Patel, and H.M. Berman Hydration of the phosphate group in double-helical DNA Biophys. J. 75 1998 2422 2434
65. A. McPherson Crystallization of Biological Macromolecules 1999 Cold Spring Harbor Laboratory Press Cold Spring Harbor, New York
66. A. McPherson Introduction to Macromolecular Crystallography 2002 Wiley-Liss New York
67. A. McPherson Macromolecular crystallization Methods 34 2004 251 423
68. C. Carter Jr. Macromolecular Crystallography, Part D Methods Enzymol. vol. 374 2003 Academic Press New York
69. M.D. Barkley, P.A. Lewis, and G.E. Sullivan Ion effects on the lac repressor-operator equilibrium Biochemistry 20 1981 3842 3851
70. T. Arakawa, and S.N. Timasheff Preferential interactions of proteins with salts in concentrated solutions Biochemistry 21 1982 6545 6552
71. T. Arakawa, and S.N. Timasheff Mechanism of protein salting in and salting out by divalent cation salts: balance between hydration and salt binding Biochemistry 23 1984 5912 5923
72. E.R. Stadtman Metal ion-catalyzed oxidation of proteins: biochemical mechanism and biological consequences Free Radic. Biol. Med. 9 1990 315 325
73. J. Bello, and H.R. Bello Evidence from model peptides relating to the denaturation of proteins by lithium salts Nature 194 1962 681 682
74. J. Bello, D. Haas, and H.R. Bello Interactions of protein-denaturing salts with model amides Biochemistry 5 1966 2539 2548
75. S.J. Davidson, and W.P. Jencks The effect of concentrated salt solutions on a merocyanine dye, a vinylogous amide J. Am. Chem. Soc. 91 1969 225 234
76. D.J. Haas Interactions between lithium salts and a model peptide: crystal structure of lithium chloride-n-methylacetamide complex Nature 201 1964 64 65
77. A. Hamabata, and P.H. von Hippel Model studies on the effects of neutral salts on the conformational stability of biological macromolecules: II. Effects of vicinal hydrophobic groups on the specificity of binding of ions to amide groups Biochemistry 12 1973 1264 1271
78. J. Kurtz, and W.F. Harrington Interaction of poly-L-proline with lithium bromide J. Mol. Biol. 17 1966 440 455
79. T. Schleich, R. Gentzler, and P.H. von Hippel Proton exchange of n-methylacetamide in concentrated aqueous electrolyte solutions: I. Acid Catalysis. J. Am. Chem. Soc. 90 1968 5954 5960
80. T. Schleich, B. Rollefson, and P.H. von Hippel Proton exchange of n-methylacetamide in concentrated aqueous electrolyte solutions: II. Acid catalysis in water-dioxane mixtures and base catalysis J. Am. Chem. Soc. 93 1971 7070 7074
81. H. Sigel, and R.B. Martin Coordinating properties of the amide bond. Stability and structure of metal ion complexes of peptide and related ligands Chem. Rev. 82 1982 385 426
82. P. Benas, L. Legrand, and M. Ries-Kautt Strong and specific effects of cations on lysozyme chloride solubility Acta Crystallogr., D Biol. Crystallogr. 58 2002 1582 1587
83. G. Singh, J. Jasti, K. Saravanan, S. Sharma, P. Kaur, A. Srinivasan, and T.P. Singh Crystal structure of the complex formed between a group I phospholipase A2 and a naturally occurring fatty acid at 2.7 A resolution Protein Sci. 14 2005 395 400
84. W.T. Desmarais, D.L. Bienvenue, K.P. Bzymek, R.C. Holz, G.A. Petsko, and D. Ringe The 1.20 A resolution crystal structure of the aminopeptidase from Aeromonas proteolytica complexed with tris: a tale of buffer inhibition Structure (Camb.) 10 2002 1063 1072
85. P.E. Mason, G.W. Neilson, C.E. Dempsey, A.C. Barnes, and J.M. Cruickshank The hydration structure of guanidinium and thiocyanate ions: implications for protein stability in aqueous solution Proc. Natl. Acad. Sci. U. S. A. 100 2003 4557 4561
86. G.I. Makhatadze, M.M. Lopez, J.M. Richardson III, and S.T. Thomas Anion binding to the ubiquitin molecule Protein Sci. 7 1998 689 697
87. C. Jolivalt, A. Bockmann, M. Ries-Kautt, A. Ducruix, and E. Guittet Characterization of the interaction between bovine pancreatic trypsin inhibitor and thiocyanate by NMR Biophys. Chem. 71 1998 221 234
88. E. Volkin The combination of insulin with thiocyanate ions J. Biol. Chem. 175 1948 675 681
89. G. Scatchard, I.H. Scheinberg, and S.H. Armstrong Jr. Physical chemistry of protein solutions: V. The combination of human serum albumin with thiocyanate J. Am. Chem. Soc. 72 1950 540 546
90. C. Hamiaux, T. Prange, M. Ries-Kautt, A. Ducruix, S. Lafont, J.P. Astier, and S. Veesler The decameric structure of bovine pancreatic trypsin inhibitor (BPTI) crystallized from thiocyanate at 2.7 A resolution Acta Crystallogr., D Biol. Crystallogr. 55 Pt 1 1999 103 113
91. E.P. Pittz, and S.N. Timasheff Interaction of ribonuclease a with aqueous 2-methyl-2,4-pentanediol at pH 5.8 Biochemistry 17 1978 615 623
92. S. Miller, J. Janin, A.M. Lesk, and C. Chothia Interior and surface of monomeric proteins J. Mol. Biol. 196 1987 641 656
93. K. Anand, D. Pal, and R. Hilgenfeld An overview on 2-methyl-2,4- pentanediol in crystallization and in crystals of biological macromolecules Acta Crystallogr., D Biol. Crystallogr. 58 2002 1722 1728
94. J.J. Li, M. Venkataramana, A.Q. Wang, S. Sanyal, J.C. Janson, and Z.G. Su A mild hydrophobic interaction chromatography involving polyethylene glycol immobilized to agarose media refolding recombinant Staphylococcus aureus elongation factor G Protein Expr. Purif. 40 2005 327 335
95. A.P. Minton Influence of macromolecular crowding upon the stability and state of association of proteins: predictions and observations J. Pharm. Sci. 94 2005 1668 1675
96. P.R. Davis-Searles, A.J. Saunders, D.A. Erie, D.J. Winzor, G.J. Pielak, Interpreting the effects of small uncharged solutes on protein-folding equilibria, Annu. Rev Biophys. Biomol. Struct. 30 (96 A.D.) 271-306.
97. A. Almagor, A. Priev, G. Barshtein, B. Gavish, and S. Yedgar Reduction of protein volume and compressibility by macromolecular cosolvents: dependence on the cosolvent molecular weight Biochim. Biophys. Acta 1382 1998 151 156
98. A. Priev, A. Almagor, S. Yedgar, and B. Gavish Glycerol decreases the volume and compressibility of protein interior Biochemistry 35 1996 2061 2066
99. + binding by troponin C Biochemistry 42 2003 5522 5530
100. D.W. Bolen, and I.V. Baskakov The osmophobic effect: natural selection of a thermodynamic force in protein folding J. Mol. Biol. 310 2001 955 963
101. B.J. Bennion, and V. Daggett Counteraction of urea-induced protein denaturation by trimethylamine N-oxide: a chemical chaperone at atomic resolution Proc. Natl. Acad. Sci. U. S. A. 101 2004 6433 6438
102. A. Fernandez, T.R. Sosnick, and A. Colubri Dynamics of hydrogen bond desolvation in protein folding J. Mol. Biol. 321 2002 659 675
103. N.L. Jarvis, and M.A. Scheiman Surface potentials of aqueous electrolyte solutions J. Phys. Chem. 72 1968 74 78
104. K.D. Collins, and M.W. Washabaugh The Hofmeister effect and the behaviour of water at interfaces Q. Rev. Biophys. 18 1985 323 422
105. 2SO, DMA, DMF, and Acetone J. Am. Chem. Soc. 106 1984 6135 6139
106. W.P. Jencks Binding energy, specificity, and enzymic catalysis: the circe effect Adv. Enzymol. Relat. Areas Mol. Biol. 43 1975 219 410
107. R. Wolfenden Thermodynamic and extrathermodynamic requirements of enzyme catalysis Biophys. Chem. 105 2003 559 572
108. A. Warshel Computer simulations of enzyme catalysis: methods, progress, and insights Annu. Rev. Biophys. Biomol. Struct. 32 2003 425 443