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PubMed1996

Thermodynamics of ligand binding to acyl-coenzyme A binding protein studied by titration calorimetry.

Ligand binding to recombinant bovine acyl-CoA binding protein (ACBP) was examined using isothermal microcalorimetry. Microcalorimetric measurements confirm that the binding affinity of acyl-CoA esters for ACBP is strongly dependent on the length of the acyl chain with a clear preference for acyl-CoA esters containing more than eight carbon atoms and that the 3'-phosphate of the ribose accounts for almost half of the binding energy. Binding of acyl-CoA esters, with increasing chain length, to ACBP was clearly enthalpically driven with a slightly unfavorable entropic contribution. Accessible surface areas derived from the measured enthalpies were compared to those calculated from sets of three-dimensional solution structures and showed reasonable correlation, confirming the enthalphically driven binding. Binding of dodecanoyl-CoA to ACBP was studied at various temperatures and was characterized by a weak temperature dependence on delta G zero and a strong enthalpy-entropy compensation. This was a direct consequence of a large heat capacity delta Cp caused by the presence of strong hydrophobic interactions. Furthermore, the binding of dodecanoyl-CoA was studied at various pH values and ionic strengths. The data presented here state that ACBP binds long-chain acyl-CoA esters with very high affinity and suggest that ACBP acts as a housekeeping protein with no pronounced built-in specificity.

Acyl Coenzyme A↗
PubMed1998

13C NMR, X-ray, and differential scanning calorimetry investigations of truncated BPTI (aprotinin) analogues.

Truncated BPTI missing residues 1 and 2 is investigated together with variants thereof (Lys-15, Arg-17, and Arg-42 are replaced by other residues in various combinations). A comparison of the X-ray structure of BPTI with that of 3-58BPTI(K15R,R17A,R42S) shows only minor variations for the backbone, but the lack of salt bridge between the terminals and the lack of two N-terminal residues provide a structure open at one end. Comparisons of amide exchange rates show a dramatic increase for the most slowly exchanging NH protons of 3-58BPTI and the analogues thereof, as compared to those of the wild-type despite only small differences in the structures. The amide exchange rates for truncated analogues increase with decreasing TTEP (temperature top endothermic peak) values. On the basis of the known structural changes comparisons to 13C chemical shifts are made. 13C chemical shifts are assigned using the D-isotope and HMBC techniques. Excellent resolution is obtained in these 1D natural abundance spectra. 13C NMR chemical shifts are shown to be able to gauge structural changes. A comparison of 13C chemical shifts of WT BPTI (aprotinin) and 3-58BPTI reveals effects caused by (i) the removal of the salt bridge of the terminii, (ii) the charge of the N-terminus, and (iii) the increased mobility of the side chain of Tyr-23. Small effects are also seen due to a conformational change of the aromatic ring of Phe-4. Ring current shifts at 13C chemical shifts are calculated. The difference in the calculated ring current effects are small comparing the wild-type with 3-58BPTI(K15R,R17A,R42S) provided the structures are relaxed. Protein unfolding as a function of pH and temperature is studied by DSC. Unfolding occurs at lower temperature with N-terminally truncated analogues, and the maximum is shifted toward higher pH.

Amino Acid Substitution↗
PubMed1998

Differential scanning calorimetry study of the thermodynamic stability of some mutants of Sso7d from Sulfolobus solfataricus.

Sso7d from the thermoacidophilic archaebacterium Sulfolobus solfataricus is a small globular protein with a known three-dimensional structure. Inspection of the structure reveals that Phe31 is a member of the aromatic cluster forming the protein hydrophobic core, whereas Trp23 is located on the protein surface and its side chain exposed to the solvent. The thermodynamic consequences of the substitution of these two residues in Sso7d have been investigated by comparing the temperature-induced denaturation of Sso7d with that of three mutants: F31A-Sso7d, F31Y-Sso7d, and W23A-Sso7d. The denaturation processes proved to be reversible for all proteins, and represented well by the two-state N if D transition model in a wide range of pH. All three mutants are less thermally stable than the parent protein; in particular, in the pH range of 5.0-7.0, the F31A substitution leads to a decrease of 24 degreesC in the denaturation temperature, the F31Y substitution to a decrease of 10 degreesC, and the W23A substitution to a decrease of 6 degreesC. A careful thermodynamic analysis of such experimental data is carried out.

Alanine↗
PubMed1998

Contribution of hydrogen bonds to the conformational stability of human lysozyme: calorimetry and X-ray analysis of six tyrosine --> phenylalanine mutants.

The contribution of hydrogen bonds to the conformational stability of human lysozyme was investigated by the combination of calorimetric and X-ray analyses of six Tyr --> Phe mutants. Unfolding Delta G and unfolding Delta H values of the Tyr --> Phe mutant proteins were changed by from +0.3 to -4.0 kJ/mol and from 0 to -16 kJ/mol, respectively, compared to those of the wild-type protein. The net contribution of a hydrogen bond at a specific site to stability (Delta Gwild/HB), considering factors affected by substitutions, was evaluated on the basis of X-ray structures of the mutant proteins. In the present study, one of six mutant proteins was suitable for evaluating the strength of the hydrogen bond. Delta Gwild/HB for the intramolecular hydrogen bond at Tyr124 was evaluated to be 7.5 kJ/mol. Results of the analysis of other mutants also suggest that hydrogen bonds of the hydroxyl group of Tyr, including the hydrogen bond with a water molecule, contribute to the stabilization of the human lysozyme.

Calorimetry, Differential Scanning↗
PubMed2002

Solid-state NMR and calorimetry of structural waters in helical peptides.

The peptide hydrates Gly-Gly-Val x 2H(2)O (GGV) and Gly-Ala-Leu x 3H(2)O (GAL) are known to adopt alpha-helical configurations containing waters of hydration in which each water is H-bonded to three or four peptide groups. Herein we report a thermodynamic and solid-state NMR ((2)H and (17)O) study of these peptides. From TGA and DSC, the average enthalpy per H-bond is 15 kJ/mol. The dynamics and average orientation of the hydrate are studied by powder and single-crystal (2)H NMR. Whereas waters that are shown by the X-ray structure to be coordinated by four hydrogen bonds do not yield observable (2)H NMR signals at room temperature, two of the three triply coordinated waters yield residual (2)H quadrupole coupling tensors characteristic of rapid 180 degrees flip motions and the orientation of the residual tensor is that expected from the X-ray structure-derived H-bonding pattern. At -65 degrees C, the flip motions of triply coordinated water in GGV slow into the (2)H NMR intermediate exchange regime whereas the tetrahedrally coordinated water approaches the slow-exchange limit and yields an observable NMR signal. Extensive isotope exchange between water vapor and crystalline GGV establishes the presence of additional hydrate dynamics and solid-state proton transfer along a chain of water-bridged protonated alpha-amino groups.

Calorimetry, Differential Scanning↗
PubMed2004

Isothermal titration calorimetry studies on the binding of DNA bases and PNA base monomers to gold nanoparticles.

An isothermal titration calorimetric (ITC) investigation of the interaction of DNA bases and PNA base monomers with gold nanoparticles is described revealing a binding sequence in the order C > G > A > T. Direct measurement of the strength of interaction of ligands with nanogold by ITC has important implications in surface modification strategies for biomedical, catalysis, and nanoarchitecture applications.

Adenine↗
PubMed1999

Accuracy of Klason lignin and acid detergent lignin methods as assessed by bomb calorimetry.

An accurate method for estimation of lignin concentration is important for prediction of the digestible energy content of livestock feeds. The accuracy of lignin concentration estimates based on the Klason lignin and acid detergent lignin methods was compared. Ten diverse forage samples were analyzed for protein, carbohydrates, lipids, organic acids, ash, lignin (by both methods), and gross energy. The accuracy of the two lignin concentration estimates was examined by comparing the measured forage gross energy to a gross energy value calculated from the compositional analysis. Use of the acid detergent lignin estimate in this gross energy calculation accounted for 68-84% of the forage gross energy compared to 85-97% of the gross energy using Klason lignin. These results indicate that while Klason lignin estimates are substantially higher than acid detergent lignin estimates, Klason lignin is the more accurate lignin method and does not overestimate lignin because gross energy recoveries were less than 100%.

Animal Feed↗
PubMed2005

Thermodynamic properties underlying the alpha-helix-to-beta-sheet transition, aggregation, and amyloidogenesis of polylysine as probed by calorimetry, densimetry, and ultrasound velocimetry.

In this work, we performed a detailed thermodynamic study of an aggregation-prone polypeptide, polylysine, to gain a deeper insight into the scenario of physicochemical events during its unfolding, aggregation, and amyloidogenesis. The precise and simultaneous determination of the partial molar volume, the heat capacity, and the coefficients of thermal expansion, as well as adiabatic and isothermal compressibility of the protein upon unfolding and aggregation, yields a thermodynamic picture of the aggregation process highlighting the importance of volume fluctuations during unfolding and amyloidogenesis of proteins.

Amyloid beta-Peptides↗
PubMedDate not supplied

Solid state side chain transitions of poly(alpha-amino acids). I. Investigation by differential scanning calorimetry.

The differential scanning calorimetric behavior of a series of alpha-amino acid homopolymers and copolymers was investigated in the range of temperature from -80 to +130 degrees C. The following polymers have been examined: poly(N'-carbobenzoxy-L-lysine), poly(O-carbobenzoxy-L-tyrosine), random copolymers of O-carbobenzoxy-L-tyrosine and N'-carbobenzoxy-L-lysine, poly(Ngamma-carbobenzoxy-L-diaminobutyric acid), and poly(N sigma-carbobenzoxy-L-ornithine). Each sample exhibited a prominent glass-like transition between +30 and +60 degrees C with a specific heat increment deltacp of the order of 0.03-0.11 cal/(g degrees C). Endothermal peaks, developed by annealing, have been also been revealed. It is concluded that in poly(alpha-amino acids) side chain motions are capable of undergoing glass-like transition.

Aminobutyrates↗
PubMed1997

High order DNA structure as inferred by optical fluorimetry and scanning calorimetry.

New quantitative insights on the native high order chromatin-DNA structure existing within interphase nuclei are obtained by monitoring the effects of two common well-characterized fixatives, glutaraldehyde and ethanol/acetic acid mixture, at the level of the intranuclear DNA distribution and structures. Reproducible distinct levels of DNA fluorescence intensity and their intranuclear distribution are apparent in unfixed and fixed thymocytes by using DAPI and quantitative optical microscopy based on a charge coupled device. The fluorescent histograms correlated with the calorimetric thermograms on the very same thymocytes fixed and unfixed, establish an unequivocal baseline for the different levels of structural organization of the chromatin within the intact nucleus; namely their number, DNA packing ratio and fiber diameter. A systematic comparison among all the numerous models, being so far proposed for the quinternary and quaternary levels of DNA folding, to identifies the rope or ribbon-like and the chromonema as the ones that best fit with the in situ distribution.

Animals↗
PubMed1994

Measurement of glass transition temperatures of freeze-concentrated solutes by differential scanning calorimetry.

Thermal analysis of aqueous solutions in which the solute does not crystallize immediately upon freezing was carried out to define the effects of experimental parameters on thermograms in the glass transition region. The intensity of enthalpy relaxations in the glass transition region is related to both the rate of cooling and the rate of heating through the glass transition region--slow cooling or slow heating increases the extent of structural relaxation in the glassy state and increases the intensity of the endotherm. Plots of the logarithm of heating rate versus 1/Tg' are linear, and activation enthalpies for structural relaxation are in the range of 210-350 kJ/mol. For polymeric solutes, both the activation enthalpies for structural relaxation and the heat capacity change accompanying the glass transition increase with increasing molecular weight of the solute. Molecular weight dependence of the observed midpoint of the glass transition agrees with the Fox-Flory relationship. Results are compared and contrasted with glass transitions in solid polymers and with the glass transition of hyperquenched water. Practical implications for characterization of formulations intended for freeze-drying are discussed.

Calorimetry, Differential Scanning↗
PubMed1998

Precision and accuracy in a metabolic monitor for indirect calorimetry.

OBJECTIVE: To determine within-machine and between-machine precision (reproducibility) and accuracy, of the Deltatrac Mk 1 Metabolic Monitor. DESIGN: Within-machine and between-machine comparison for gas exchange (VO2 and VCO2), respiratory quotient (RQ) and energy expenditure (EE). SUBJECTS: 3 Deltatrac Mk 1 Metabolic Monitors. METHODS: Within-machine and between-machine reproducibility were assessed by five successive 10 min gas infusion tests in each machine. Accuracy was assessed by measuring independently the gas content of the infusion mixture. The Deltatrac flowmeters were evaluated by further infusion tests. RESULTS: Within-study reproducibility was < 1 ml/min for VCO2, < 2.5 ml/min for VO2, < 5 kcal/d for EE and < 0.01 for RQ. Between-study reproducibility was < 0.2% for RQ, < 1% for VCO2 and < 2% for VO2 and EE. Between-machine reproducibility was < 0.1% for RQ and < 1% for VO2, VCO2 and EE. Accuracy in all three machines was within 3% for VO2, VCO2 and EE, and within 0.2% for RQ. CONCLUSIONS: The Deltatrac Mk 1 is a very precise metabolic monitor, and is accurate within 3% for gas exchange and EE. RQ is measured with greatest reproducibility and accuracy (within 0.2%), making the monitor particularly suitable for studies of substrate utilisation.

Adult↗
PubMed2001

Dose-response relationship between fat ingestion and oxidation: quantitative estimation using whole-body calorimetry and 13C isotope ratio mass spectrometry.

OBJECTIVE: To determine dose-dependent relationship between ingested fat and its oxidation in the immediate post-prandial period in humans. DESIGN: Subjects were randomly selected for the study at the Dunn Clinical Nutrition Centre, Cambridge, UK. Subjects ingested naturally enriched 13C corn-oil doses (range 20-140g) in a whole-body indirect calorimeter, and were studied for 8 h. Ingested fat oxidation was estimated from the subject's breath 13C enrichment and total carbon dioxide production. Total fat and carbohydrate oxidation were estimated from non-protein oxygen and carbon dioxide exchanges. Endogenous fat oxidation was estimated as the difference between total fat and ingested fat oxidation. RESULTS: The amount of fat dose oxidized was nonlinearly related to the amount ingested. On average, 25.6+/-2.7% of the mean fat dose was oxidized. A significant (r = - 0.72, P < 0.001) inverse correlation was found between the amount of fat dose and the proportion oxidized. Endogenous carbohydrate oxidation was negatively and significantly correlated to fat dose oxidized (r= -0.61, P < 0.01), but it was not correlated to endogenous fat oxidation. CONCLUSIONS: There was a nonlinear relationship between amount of fat dose and its quantity that was oxidized in the immediate post-prandial period. The inverse relationship between the size of the fat load and the proportion that was oxidized post-prandially implies increased dietary fat storage beyond about 50 g in a normal resting adult. This has important implications for 13CO2-based studies.

Adolescent↗