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George Makhatadze

TitleProfessor
InstitutionRensselaer Polytechnic Institute
DepartmentBiology
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     Bibliographic 
     selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    1. Keshwani N, Banerjee S, Brodsky B, Makhatadze GI. The role of cross-chain ionic interactions for the stability of collagen model peptides. Biophys J. 2013 Oct 1; 105(7):1681-8.
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    2. Wafer LN, Tzul FO, Pandharipande PP, Makhatadze GI. Novel interactions of the TRTK12 peptide with S100 protein family members: specificity and thermodynamic characterization. Biochemistry. 2013 Aug 27; 52(34):5844-56.
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    3. Shanmuganathan A, Bishop AC, French KC, McCallum SA, Makhatadze GI. Bacterial expression and purification of the amyloidogenic peptide PAPf39 for multidimensional NMR spectroscopy. Protein Expr Purif. 2013 Apr; 88(2):196-200.
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    4. Tripathi S, Makhatadze GI, Garcia AE. Backtracking due to residual structure in the unfolded state changes the folding of the third fibronectin type III domain from tenascin-C. J Phys Chem B. 2013 Jan 24; 117(3):800-10.
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    5. French KC, Makhatadze GI. Core sequence of PAPf39 amyloid fibrils and mechanism of pH-dependent fibril formation: the role of monomer conformation. Biochemistry. 2012 Dec 21; 51(51):10127-36.
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    6. Canchi DR, Jayasimha P, Rau DC, Makhatadze GI, Garcia AE. Molecular mechanism for the preferential exclusion of TMAO from protein surfaces. J Phys Chem B. 2012 Oct 11; 116(40):12095-104.
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    7. Wafer LN, Streicher WW, McCallum SA, Makhatadze GI. Thermodynamic and kinetic analysis of peptides derived from CapZ, NDR, p53, HDM2, and HDM4 binding to human S100B. Biochemistry. 2012 Sep 11; 51(36):7189-201.
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    8. Scian M, Lin JC, Le Trong I, Makhatadze GI, Stenkamp RE, Andersen NH. Crystal and NMR structures of a Trp-cage mini-protein benchmark for computational fold prediction. Proc Natl Acad Sci U S A. 2012 Jul 31; 109(31):12521-5.
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    9. Vöpel T, Makhatadze GI. Enzyme activity in the crowded milieu. PLoS One. 2012; 7(6):e39418.
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    10. Chan CH, Wilbanks CC, Makhatadze GI, Wong KB. Electrostatic contribution of surface charge residues to the stability of a thermophilic protein: benchmarking experimental and predicted pKa values. PLoS One. 2012; 7(1):e30296.
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    11. Zarrine-Afsar A, Zhang Z, Schweiker KL, Makhatadze GI, Davidson AR, Chan HS. Kinetic consequences of native state optimization of surface-exposed electrostatic interactions in the Fyn SH3 domain. Proteins. 2012 Mar; 80(3):858-70.
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    12. Loladze VV, Makhatadze GI. Energetics of charge-charge interactions between residues adjacent in sequence. Proteins. 2011 Dec; 79(12):3494-9.
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    13. Jimenez-Cruz CA, Makhatadze GI, Garcia AE. Protonation/deprotonation effects on the stability of the Trp-cage miniprotein. Phys Chem Chem Phys. 2011 Oct 14; 13(38):17056-63.
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    14. Juárez O, Shea ME, Makhatadze GI, Barquera B. The role and specificity of the catalytic and regulatory cation-binding sites of the Na+-pumping NADH:quinone oxidoreductase from Vibrio cholerae. J Biol Chem. 2011 Jul 29; 286(30):26383-90.
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    15. Patel MM, Tzul F, Makhatadze GI. Equilibrium and kinetic studies of protein cooperativity using urea-induced folding/unfolding of a Ubq-UIM fusion protein. Biophys Chem. 2011 Nov; 159(1):58-65.
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    16. Bush J, Makhatadze GI. Statistical analysis of protein structures suggests that buried ionizable residues in proteins are hydrogen bonded or form salt bridges. Proteins. 2011 Jul; 79(7):2027-32.
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    17. Patel MM, Sgourakis NG, Garcia AE, Makhatadze GI. Experimental test of the thermodynamic model of protein cooperativity using temperature-induced unfolding of a Ubq-UIM fusion protein. Biochemistry. 2010 Oct 5; 49(39):8455-67.
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    18. Tsamaloukas AD, Pyzocha NK, Makhatadze GI. Pressure perturbation calorimetry of unfolded proteins. J Phys Chem B. 2010 Dec 16; 114(49):16166-70.
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    19. Streicher WW, Lopez MM, Makhatadze GI. Modulation of quaternary structure of S100 proteins by calcium ions. Biophys Chem. 2010 Oct; 151(3):181-6.
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    20. Wafer LN, Streicher WW, Makhatadze GI. Thermodynamics of the Trp-cage miniprotein unfolding in urea. Proteins. 2010 May 1; 78(6):1376-81.
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    21. Sgourakis NG, Patel MM, Garcia AE, Makhatadze GI, McCallum SA. Conformational dynamics and structural plasticity play critical roles in the ubiquitin recognition of a UIM domain. J Mol Biol. 2010 Mar 5; 396(4):1128-44.
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    22. Ye Z, French KC, Popova LA, Lednev IK, Lopez MM, Makhatadze GI. Mechanism of fibril formation by a 39-residue peptide (PAPf39) from human prostatic acidic phosphatase. Biochemistry. 2009 Dec 8; 48(48):11582-91.
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    23. Schweiker KL, Fitz VW, Makhatadze GI. Universal convergence of the specific volume changes of globular proteins upon unfolding. Biochemistry. 2009 Nov 24; 48(46):10846-51.
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    24. Schweiker KL, Makhatadze GI. Use of pressure perturbation calorimetry to characterize the volumetric properties of proteins. Methods Enzymol. 2009; 466:527-47.
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    25. Chung WK, Hou Y, Holstein M, Freed A, Makhatadze GI, Cramer SM. Investigation of protein binding affinity in multimodal chromatographic systems using a homologous protein library. J Chromatogr A. 2010 Jan 8; 1217(2):191-8.
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    26. Streicher WW, Lopez MM, Makhatadze GI. Annexin I and annexin II N-terminal peptides binding to S100 protein family members: specificity and thermodynamic characterization. Biochemistry. 2009 Mar 31; 48(12):2788-98.
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    27. Chung WK, Hou Y, Freed A, Holstein M, Makhatadze GI, Cramer SM. Investigation of protein binding affinity and preferred orientations in ion exchange systems using a homologous protein library. Biotechnol Bioeng. 2009 Feb 15; 102(3):869-81.
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    28. Gribenko AV, Patel MM, Liu J, McCallum SA, Wang C, Makhatadze GI. Rational stabilization of enzymes by computational redesign of surface charge-charge interactions. Proc Natl Acad Sci U S A. 2009 Feb 24; 106(8):2601-6.
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    29. Schweiker KL, Makhatadze GI. Protein stabilization by the rational design of surface charge-charge interactions. Methods Mol Biol. 2009; 490:261-83.
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    30. Schweiker KL, Makhatadze GI. A computational approach for the rational design of stable proteins and enzymes: optimization of surface charge-charge interactions. Methods Enzymol. 2009; 454:175-211.
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    31. Bale S, Lopez MM, Makhatadze GI, Fang Q, Pegg AE, Ealick SE. Structural basis for putrescine activation of human S-adenosylmethionine decarboxylase. Biochemistry. 2008 Dec 16; 47(50):13404-17.
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    32. Gvritishvili AG, Gribenko AV, Makhatadze GI. Cooperativity of complex salt bridges. Protein Sci. 2008 Jul; 17(7):1285-90.
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    33. Schweiker KL, Zarrine-Afsar A, Davidson AR, Makhatadze GI. Computational design of the Fyn SH3 domain with increased stability through optimization of surface charge charge interactions. Protein Sci. 2007 Dec; 16(12):2694-702.
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    34. Streicher WW, Makhatadze GI. Unfolding thermodynamics of Trp-cage, a 20 residue miniprotein, studied by differential scanning calorimetry and circular dichroism spectroscopy. Biochemistry. 2007 Mar 13; 46(10):2876-80.
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    35. Streicher WW, Makhatadze GI. Advances in the analysis of conformational transitions in peptides using differential scanning calorimetry. Methods Mol Biol. 2007; 350:105-13.
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    36. Gribenko AV, Makhatadze GI. Role of the charge-charge interactions in defining stability and halophilicity of the CspB proteins. J Mol Biol. 2007 Feb 23; 366(3):842-56.
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    37. Gribenko AV, Keiffer TR, Makhatadze GI. Amino acid substitutions affecting protein dynamics in eglin C do not affect heat capacity change upon unfolding. Proteins. 2006 Aug 1; 64(2):295-300.
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    38. Ermolenko DN, Dangi B, Gvritishvili A, Gronenborn AM, Makhatadze GI. Elimination of the C-cap in ubiquitin - structure, dynamics and thermodynamic consequences. Biophys Chem. 2007 Mar; 126(1-3):25-35.
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    39. Strickler SS, Gribenko AV, Gribenko AV, Keiffer TR, Tomlinson J, Reihle T, Loladze VV, Makhatadze GI. Protein stability and surface electrostatics: a charged relationship. Biochemistry. 2006 Mar 7; 45(9):2761-6.
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    40. Bang D, Gribenko AV, Tereshko V, Kossiakoff AA, Kent SB, Makhatadze GI. Dissecting the energetics of protein alpha-helix C-cap termination through chemical protein synthesis. Nat Chem Biol. 2006 Mar; 2(3):139-43.
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    41. Streicher WW, Makhatadze GI. Calorimetric evidence for a two-state unfolding of the beta-hairpin peptide trpzip4. J Am Chem Soc. 2006 Jan 11; 128(1):30-1.
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    42. Lee CF, Makhatadze GI, Wong KB. Effects of charge-to-alanine substitutions on the stability of ribosomal protein L30e from Thermococcus celer. Biochemistry. 2005 Dec 27; 44(51):16817-25.
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    43. Permyakov SE, Makhatadze GI, Owenius R, Uversky VN, Brooks CL, Permyakov EA, Berliner LJ. How to improve nature: study of the electrostatic properties of the surface of alpha-lactalbumin. Protein Eng Des Sel. 2005 Sep; 18(9):425-33.
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    44. Bang D, Makhatadze GI, Tereshko V, Kossiakoff AA, Kent SB. Total chemical synthesis and X-ray crystal structure of a protein diastereomer: [D-Gln 35]ubiquitin. Angew Chem Int Ed Engl. 2005 Jun 20; 44(25):3852-6.
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    45. Richardson JM, Lopez MM, Makhatadze GI. Enthalpy of helix-coil transition: missing link in rationalizing the thermodynamics of helix-forming propensities of the amino acid residues. Proc Natl Acad Sci U S A. 2005 Feb 1; 102(5):1413-8.
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    46. Makhatadze GI. Thermodynamics Of alpha-Helix Formation. Adv Protein Chem. 2005; 72:199-226.
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    47. Loladze VV, Makhatadze GI. Both helical propensity and side-chain hydrophobicity at a partially exposed site in alpha-helix contribute to the thermodynamic stability of ubiquitin. Proteins. 2005 Jan 1; 58(1):1-6.
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    48. Lee YC, Volk DE, Thiviyanathan V, Kleerekoper Q, Gribenko AV, Zhang S, Gorenstein DG, Makhatadze GI, Luxon BA. NMR structure of the Apo-S100P protein. J Biomol NMR. 2004 Jul; 29(3):399-402.
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    49. Makhatadze GI, Loladze VV, Gribenko AV, Lopez MM. Mechanism of thermostabilization in a designed cold shock protein with optimized surface electrostatic interactions. J Mol Biol. 2004 Feb 27; 336(4):929-42.
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    50. Richardson JM, Makhatadze GI. Temperature dependence of the thermodynamics of helix-coil transition. J Mol Biol. 2004 Jan 23; 335(4):1029-37.
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    51. Ermolenko DN, Richardson JM, Makhatadze GI. Noncharged amino acid residues at the solvent-exposed positions in the middle and at the C terminus of the alpha-helix have the same helical propensity. Protein Sci. 2003 Jun; 12(6):1169-76.
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    52. Makhatadze GI, Loladze VV, Ermolenko DN, Chen X, Thomas ST. Contribution of surface salt bridges to protein stability: guidelines for protein engineering. J Mol Biol. 2003 Apr 11; 327(5):1135-48.
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    53. Ermolenko DN, Makhatadze GI. Bacterial cold-shock proteins. Cell Mol Life Sci. 2002 Nov; 59(11):1902-13.
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    54. Ermolenko DN, Thomas ST, Aurora R, Gronenborn AM, Makhatadze GI. Hydrophobic interactions at the Ccap position of the C-capping motif of alpha-helices. J Mol Biol. 2002 Sep 6; 322(1):123-35.
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    55. Loladze VV, Ermolenko DN, Makhatadze GI. Thermodynamic consequences of burial of polar and non-polar amino acid residues in the protein interior. J Mol Biol. 2002 Jul 5; 320(2):343-57.
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    56. Gribenko AV, Guzmán-Casado M, Lopez MM, Makhatadze GI. Conformational and thermodynamic properties of peptide binding to the human S100P protein. Protein Sci. 2002 Jun; 11(6):1367-75.
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    57. Lopez MM, Chin DH, Baldwin RL, Makhatadze GI. The enthalpy of the alanine peptide helix measured by isothermal titration calorimetry using metal-binding to induce helix formation. Proc Natl Acad Sci U S A. 2002 Feb 5; 99(3):1298-302.
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    58. Lopez MM, Makhatadze GI. Differential scanning calorimetry. Methods Mol Biol. 2002; 173:113-9.
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    59. Lopez MM, Makhatadze GI. Isothermal titration calorimetry. Methods Mol Biol. 2002; 173:121-6.
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    60. Loladze VV, Makhatadze GI. Removal of surface charge-charge interactions from ubiquitin leaves the protein folded and very stable. Protein Sci. 2002 Jan; 11(1):174-7.
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    61. Gribenko AV, Hopper JE, Makhatadze GI. Molecular characterization and tissue distribution of a novel member of the S100 family of EF-hand proteins. Biochemistry. 2001 Dec 25; 40(51):15538-48.
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    62. Thomas ST, Loladze VV, Makhatadze GI. Hydration of the peptide backbone largely defines the thermodynamic propensity scale of residues at the C' position of the C-capping box of alpha-helices. Proc Natl Acad Sci U S A. 2001 Sep 11; 98(19):10670-5.
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    63. Loladze VV, Ermolenko DN, Makhatadze GI. Heat capacity changes upon burial of polar and nonpolar groups in proteins. Protein Sci. 2001 Jul; 10(7):1343-52.
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    64. Makhatadze GI. Measuring protein thermostability by differential scanning calorimetry. Curr Protoc Protein Sci. 2001 May; Chapter 7:Unit 7.9.
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    65. Sanchez-Ruiz JM, Makhatadze GI. To charge or not to charge? Trends Biotechnol. 2001 Apr; 19(4):132-5.
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    66. Brokx RD, Lopez MM, Vogel HJ, Makhatadze GI. Energetics of target peptide binding by calmodulin reveals different modes of binding. J Biol Chem. 2001 Apr 27; 276(17):14083-91.
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    67. Lopez MM, Yutani K, Makhatadze GI. Interactions of the cold shock protein CspB from Bacillus subtilis with single-stranded DNA. Importance of the T base content and position within the template. J Biol Chem. 2001 May 4; 276(18):15511-8.
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    68. Ibarra-Molero B, Makhatadze GI, Matthews CR. Mapping the energy surface for the folding reaction of the coiled-coil peptide GCN4-p1. Biochemistry. 2001 Jan 23; 40(3):719-31.
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    69. Richardson JM, Lemaire SD, Jacquot JP, Makhatadze GI. Difference in the mechanisms of the cold and heat induced unfolding of thioredoxin h from Chlamydomonas reinhardtii: spectroscopic and calorimetric studies. Biochemistry. 2000 Sep 12; 39(36):11154-62.
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    70. Thomas ST, Makhatadze GI. Contribution of the 30/36 hydrophobic contact at the C-terminus of the alpha-helix to the stability of the ubiquitin molecule. Biochemistry. 2000 Aug 22; 39(33):10275-83.
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    71. Lopez MM, Makhatadze GI. Major cold shock proteins, CspA from Escherichia coli and CspB from Bacillus subtilis, interact differently with single-stranded DNA templates. Biochim Biophys Acta. 2000 Jun 15; 1479(1-2):196-202.
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    72. Lemaire SD, Richardson JM, Goyer A, Keryer E, Lancelin JM, Makhatadze GI, Jacquot JP. Primary structure determinants of the pH- and temperature-dependent aggregation of thioredoxin. Biochim Biophys Acta. 2000 Feb 9; 1476(2):311-23.
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    73. Petrosian SA, Makhatadze GI. Contribution of proton linkage to the thermodynamic stability of the major cold-shock protein of Escherichia coli CspA. Protein Sci. 2000 Feb; 9(2):387-94.
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    74. Loladze VV, Ibarra-Molero B, Sanchez-Ruiz JM, Makhatadze GI. Engineering a thermostable protein via optimization of charge-charge interactions on the protein surface. Biochemistry. 1999 Dec 14; 38(50):16419-23.
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    75. Lopez MM, Yutani K, Makhatadze GI. Interactions of the major cold shock protein of Bacillus subtilis CspB with single-stranded DNA templates of different base composition. J Biol Chem. 1999 Nov 19; 274(47):33601-8.
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    76. Richardson JM, McMahon KW, MacDonald CC, Makhatadze GI. MEARA sequence repeat of human CstF-64 polyadenylation factor is helical in solution. A spectroscopic and calorimetric study. Biochemistry. 1999 Sep 28; 38(39):12869-75.
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    77. Pace CN, Grimsley GR, Thomas ST, Makhatadze GI. Heat capacity change for ribonuclease A folding. Protein Sci. 1999 Jul; 8(7):1500-4.
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    78. Ibarra-Molero B, Loladze VV, Makhatadze GI, Sanchez-Ruiz JM. Thermal versus guanidine-induced unfolding of ubiquitin. An analysis in terms of the contributions from charge-charge interactions to protein stability. Biochemistry. 1999 Jun 22; 38(25):8138-49.
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    79. Ibarra-Molero B, Makhatadze GI, Sanchez-Ruiz JM. Cold denaturation of ubiquitin. Biochim Biophys Acta. 1999 Jan 11; 1429(2):384-90.
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    80. Gribenko AV, Makhatadze GI. Oligomerization and divalent ion binding properties of the S100P protein: a Ca2+/Mg2+-switch model. J Mol Biol. 1998 Oct 30; 283(3):679-94.
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    81. Lopez MM, Makhatadze GI. Solvent isotope effect on thermodynamics of hydration. Biophys Chem. 1998 Aug 24; 74(2):117-25.
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    82. Makhatadze GI. Heat capacities of amino acids, peptides and proteins. Biophys Chem. 1998 Apr 20; 71(2-3):133-56.
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    83. Makhatadze GI, Lopez MM, Richardson JM, Thomas ST. Anion binding to the ubiquitin molecule. Protein Sci. 1998 Mar; 7(3):689-97.
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    84. Gribenko A, Lopez MM, Richardson JM, Makhatadze GI. Cloning, overexpression, purification, and spectroscopic characterization of human S100P. Protein Sci. 1998 Jan; 7(1):211-5.
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    85. Makhatadze GI, Lopez MM, Privalov PL. Heat capacities of protein functional groups. Biophys Chem. 1997 Feb 28; 64(1-3):93-101.
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    86. Makhatadze GI, Privalov PL. On the entropy of protein folding. Protein Sci. 1996 Mar; 5(3):507-10.
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    87. Makhatadze GI, Clore GM, Gronenborn AM. Solvent isotope effect and protein stability. Nat Struct Biol. 1995 Oct; 2(10):852-5.
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    88. Makhatadze GI, Privalov PL. Energetics of protein structure. Adv Protein Chem. 1995; 47:307-425.
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    89. Makhatadze GI, Marahiel MA. Effect of pH and phosphate ions on self-association properties of the major cold-shock protein from Bacillus subtilis. Protein Sci. 1994 Nov; 3(11):2144-7.
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    90. Makhatadze GI, Clore GM, Gronenborn AM, Privalov PL. Thermodynamics of unfolding of the all beta-sheet protein interleukin-1 beta. Biochemistry. 1994 Aug 9; 33(31):9327-32.
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    91. Makhatadze GI, Privalov PL. Hydration effects in protein unfolding. Biophys Chem. 1994 Aug; 51(2-3):291-304; discussion 304-9.
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    92. Makhatadze GI, Privalov PL. Energetics of interactions of aromatic hydrocarbons with water. Biophys Chem. 1994 Jun; 50(3):285-91.
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    93. Griko YV, Makhatadze GI, Privalov PL, Hartley RW. Thermodynamics of barnase unfolding. Protein Sci. 1994 Apr; 3(4):669-76.
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    94. Yu Y, Makhatadze GI, Pace CN, Privalov PL. Energetics of ribonuclease T1 structure. Biochemistry. 1994 Mar 22; 33(11):3312-9.
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    95. Wintrode PL, Makhatadze GI, Privalov PL. Thermodynamics of ubiquitin unfolding. Proteins. 1994 Mar; 18(3):246-53.
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    96. Makhatadze GI, Kim KS, Woodward C, Privalov PL. Thermodynamics of BPTI folding. Protein Sci. 1993 Dec; 2(12):2028-36.
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    97. Privalov PL, Makhatadze GI. Contribution of hydration to protein folding thermodynamics. II. The entropy and Gibbs energy of hydration. J Mol Biol. 1993 Jul 20; 232(2):660-79.
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    98. Makhatadze GI, Privalov PL. Contribution of hydration to protein folding thermodynamics. I. The enthalpy of hydration. J Mol Biol. 1993 Jul 20; 232(2):639-59.
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    99. Makhatadze GI, Privalov PL. Protein interactions with urea and guanidinium chloride. A calorimetric study. J Mol Biol. 1992 Jul 20; 226(2):491-505.
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    100. Privalov PL, Makhatadze GI. Contribution of hydration and non-covalent interactions to the heat capacity effect on protein unfolding. J Mol Biol. 1992 Apr 5; 224(3):715-23.
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    101. Makhatadze GI, Gill SJ, Privalov PL. Partial molar heat capacities of the side chains of some amino acid residues in aqueous solution. The influence of the neighboring charges. Biophys Chem. 1990 Oct; 38(1-2):33-7.
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    102. Privalov PL, Makhatadze GI. Heat capacity of proteins. II. Partial molar heat capacity of the unfolded polypeptide chain of proteins: protein unfolding effects. J Mol Biol. 1990 May 20; 213(2):385-91.
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    103. Makhatadze GI, Privalov PL. Heat capacity of proteins. I. Partial molar heat capacity of individual amino acid residues in aqueous solution: hydration effect. J Mol Biol. 1990 May 20; 213(2):375-84.
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    104. Makhatadze GI, Medvedkin VN, Privalov PL. Partial molar volumes of polypeptides and their constituent groups in aqueous solution over a broad temperature range. Biopolymers. 1990; 30(11-12):1001-10.
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    105. Privalov PL, Tiktopulo EI. Heat capacity and conformation of proteins in the denatured state. J Mol Biol. 1989 Feb 20; 205(4):737-50.
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