Andreas Barth

Summary

Affiliation: Stockholm University
Country: Sweden

Publications

  1. ncbi request reprint Selective monitoring of 3 out of 50,000 protein vibrations
    Andreas Barth
    Institut fur Biophysik, Johann Wolfgang Goethe Universitat, Theodor Stern Kai 7, Haus 74, D 60590 Frankfurt am Main, Germany
    Biopolymers 67:237-41. 2002
  2. ncbi request reprint FTIR studies on the bond properties of the aspartyl phosphate moiety of the Ca2+ -ATPase
    Julia Andersson
    Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
    Biopolymers 82:353-7. 2006
  3. doi request reprint The carbonate/bicarbonate system as a pH indicator for infrared spectroscopy
    Maurizio Baldassarre
    Department of Biochemistry and Biophysics, Stockholm University, Svante Arrhenius väg 16C, SE 106 91 Stockholm, Sweden
    Analyst 139:2167-76. 2014
  4. ncbi request reprint P-O bond destabilization accelerates phosphoenzyme hydrolysis of sarcoplasmic reticulum Ca2+ -ATPase
    Andreas Barth
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, S 106 91 Stockholm, Sweden
    J Biol Chem 279:51888-96. 2004
  5. ncbi request reprint Infrared spectroscopy of proteins
    Andreas Barth
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, S 106 91 Stockholm, Sweden
    Biochim Biophys Acta 1767:1073-101. 2007
  6. ncbi request reprint What vibrations tell us about proteins
    Andreas Barth
    Institut fur Biophysik, Johann Wolfgang Goethe Universitat, Theodor Stern Kai 7, Haus 74, D 60590 Frankfurt am Main, Germany
    Q Rev Biophys 35:369-430. 2002
  7. pmc Use of helper enzymes for ADP removal in infrared spectroscopic experiments: application to Ca2+-ATPase
    Man Liu
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, S 106 91 Stockholm, Sweden
    Biophys J 88:3615-24. 2005
  8. pmc Protonation and hydrogen bonding of Ca2+ site residues in the E2P phosphoenzyme intermediate of sarcoplasmic reticulum Ca2+-ATPase studied by a combination of infrared spectroscopy and electrostatic calculations
    Julia Andersson
    Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
    Biophys J 94:600-11. 2008
  9. doi request reprint Detection of ligand binding to proteins through observation of hydration water
    Saroj Kumar
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, Sweden
    J Phys Chem B 116:13968-74. 2012
  10. doi request reprint Effects of ions on ligand binding to pyruvate kinase: mapping the binding site with infrared spectroscopy
    Saroj Kumar
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, Stockholm, Sweden
    J Phys Chem B 115:6784-9. 2011

Collaborators

Detail Information

Publications44

  1. ncbi request reprint Selective monitoring of 3 out of 50,000 protein vibrations
    Andreas Barth
    Institut fur Biophysik, Johann Wolfgang Goethe Universitat, Theodor Stern Kai 7, Haus 74, D 60590 Frankfurt am Main, Germany
    Biopolymers 67:237-41. 2002
    ..The three phosphate stretching vibrations stand out from the 50,000 protein vibrations in an isotope exchange experiment where oxygen exchange at the phosphate group is catalyzed by the Ca2+-ATPase...
  2. ncbi request reprint FTIR studies on the bond properties of the aspartyl phosphate moiety of the Ca2+ -ATPase
    Julia Andersson
    Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
    Biopolymers 82:353-7. 2006
    ..Together with information on the P-O bond strengths, this implies that the bridging oxygen exerts stronger interactions in the phosphoenzymes than in acetyl phosphate...
  3. doi request reprint The carbonate/bicarbonate system as a pH indicator for infrared spectroscopy
    Maurizio Baldassarre
    Department of Biochemistry and Biophysics, Stockholm University, Svante Arrhenius väg 16C, SE 106 91 Stockholm, Sweden
    Analyst 139:2167-76. 2014
    ....
  4. ncbi request reprint P-O bond destabilization accelerates phosphoenzyme hydrolysis of sarcoplasmic reticulum Ca2+ -ATPase
    Andreas Barth
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, S 106 91 Stockholm, Sweden
    J Biol Chem 279:51888-96. 2004
    ..We suggest that the relative positioning of Mg2+ and Lys684 between phosphate and aspartyl oxygens controls the hydrolysis rate of the ATPase phosphoenzymes and related phosphoproteins...
  5. ncbi request reprint Infrared spectroscopy of proteins
    Andreas Barth
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, S 106 91 Stockholm, Sweden
    Biochim Biophys Acta 1767:1073-101. 2007
    ..This review discusses the application of infrared spectroscopy to the study of proteins. The focus is on the mid-infrared spectral region and the study of protein reactions by reaction-induced infrared difference spectroscopy...
  6. ncbi request reprint What vibrations tell us about proteins
    Andreas Barth
    Institut fur Biophysik, Johann Wolfgang Goethe Universitat, Theodor Stern Kai 7, Haus 74, D 60590 Frankfurt am Main, Germany
    Q Rev Biophys 35:369-430. 2002
    ....
  7. pmc Use of helper enzymes for ADP removal in infrared spectroscopic experiments: application to Ca2+-ATPase
    Man Liu
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, S 106 91 Stockholm, Sweden
    Biophys J 88:3615-24. 2005
    ..The helper enzyme approach can be extended to study other nucleotide-dependent proteins...
  8. pmc Protonation and hydrogen bonding of Ca2+ site residues in the E2P phosphoenzyme intermediate of sarcoplasmic reticulum Ca2+-ATPase studied by a combination of infrared spectroscopy and electrostatic calculations
    Julia Andersson
    Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
    Biophys J 94:600-11. 2008
    ..The carbonyl group of some side-chain conformations of Asp(800) is left without a hydrogen-bonding partner; they will therefore contribute to the higher wave number band...
  9. doi request reprint Detection of ligand binding to proteins through observation of hydration water
    Saroj Kumar
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, Sweden
    J Phys Chem B 116:13968-74. 2012
    ....
  10. doi request reprint Effects of ions on ligand binding to pyruvate kinase: mapping the binding site with infrared spectroscopy
    Saroj Kumar
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, Stockholm, Sweden
    J Phys Chem B 115:6784-9. 2011
    ..Little change in the bond strengths of PEP is observed, indicating that the PEP:PK complex does not adopt a reactive conformation...
  11. ncbi request reprint Phosphorylation of the sarcoplasmic reticulum Ca(2+)-ATPase from ATP and ATP analogs studied by infrared spectroscopy
    Man Liu
    Institut fur Biophysik, Johann Wolfgang Goethe Universitat, 60596 Frankfurt am Main, Germany
    J Biol Chem 279:49902-9. 2004
    ..ADP binding to the ADP-sensitive phosphoenzyme (Ca(2)E1P) stabilizes the closed conformation of Ca(2)E1P...
  12. ncbi request reprint Proton paths in the sarcoplasmic reticulum Ca(2+) -ATPase
    Eeva Liisa Karjalainen
    Department of Biochemistry and Biophysics, Stockholm University, Arrhenius Laboratories for Natural Sciences, Svante Arrhenius vag 12, SE 106 91, Stockholm, Sweden
    Biochim Biophys Acta 1767:1310-8. 2007
    ..For this reason, transient protonation of empty cation binding sites and separate pathways for different ions are advantageous for P-type ATPases in general...
  13. pmc Influence of residue 22 on the folding, aggregation profile, and toxicity of the Alzheimer's amyloid beta peptide
    Alex Perálvarez-Marín
    Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
    Biophys J 97:277-85. 2009
    ..In samples allowed to age, the native sequence was found to have an insignificant effect on cell viability, whereas the Arctic variant (E22G), the E22V variant, and the slightly-aggregating control (F19G-F20G) had more prominent effects...
  14. ncbi request reprint Mapping nucleotide binding site of calcium ATPase with IR spectroscopy: effects of ATP gamma-phosphate binding
    Man Liu
    Institut fur Biophysik, Johann Wolfgang Goethe Universitat, D 60590 Frankfurt am Main, Germany
    Biopolymers 67:267-70. 2002
    ..The gamma-phosphate contributes approximately 20% to the conformational change seen by IR spectroscopy and affects the beta-sheet structures. The IR experiments also reveal the known affinity difference between ADP and ATP...
  15. pmc Interactions of phosphate groups of ATP and Aspartyl phosphate with the sarcoplasmic reticulum Ca2+-ATPase: an FTIR study
    Man Liu
    Institut fur Biophysik, Johann Wolfgang Goethe Universitat, Frankfurt am Main, Germany
    Biophys J 89:4352-63. 2005
    ..The bridging bond of Ca2E1P is weaker than for acetyl phosphate, which will facilitate phosphate transfer to ADP, but is stronger than for E2P, which will make the Ca2E1P phosphate less susceptible to attack by water...
  16. pmc Phosphoenolpyruvate and Mg2+ binding to pyruvate kinase monitored by infrared spectroscopy
    Saroj Kumar
    Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
    Biophys J 98:1931-40. 2010
    ..3 pm. PEP bound to PK in the presence of the monovalent ion Na(+) exhibited the same band positions as in the presence of K(+), indicating very similar interaction strengths between ligand and protein in both cases...
  17. pmc Toward a general method to observe the phosphate groups of phosphoenzymes with infrared spectroscopy
    Eeva Liisa Karjalainen
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories of Natural Sciences, Stockholm University, Stockholm, Sweden
    Biophys J 91:2282-9. 2006
    ....
  18. pmc TNP-AMP binding to the sarcoplasmic reticulum Ca(2+)-ATPase studied by infrared spectroscopy
    Man Liu
    Institut fur Biophysik, Johann Wolfgang Goethe Universitat, Frankfurt am Main, Germany
    Biophys J 85:3262-70. 2003
    ..Regarding the use of infrared spectroscopy as a technique for ligand binding studies, our results show that infrared spectroscopy is able to distinguish different binding modes...
  19. ncbi request reprint Structures of the Ca2+-ATPase complexes with ATP, AMPPCP and AMPPNP. An FTIR study
    Maria Krasteva
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, S 106 91 Stockholm, Sweden
    Biochim Biophys Acta 1767:114-23. 2007
    ..The spectral differences between ATP and AMPPCP complex were more pronounced at high Ca(2+) concentration (10 mM). They are likely due to a different position of the gamma-phosphate which affects the beta-sheet in the P domain...
  20. ncbi request reprint Preparation of active enzyme samples for IR studies of Na+/K+-ATPase
    Detlef Thoenges
    Institut fur Biophysik, Johann Wolfgang Goethe Universitat, Theodor Stern Kai 7 Haus 74, 60590 Frankfurt Main, Germany
    Biopolymers 67:271-4. 2002
    ....
  21. ncbi request reprint Direct measurement of enzyme activity with infrared spectroscopy
    Detlef Thoenges
    Institut fur Biophysik, Johann Wolfgang Goethe Universitat, Frankfurt am Main, Germany
    J Biomol Screen 7:353-7. 2002
    ..The main advantage of the infrared method is that it observes the reaction of interest directly--that is, no activity assay that converts the progress of the reaction into an observable quantity is required...
  22. doi request reprint Secondary structure transitions and aggregation induced in dynorphin neuropeptides by the detergent sodium dodecyl sulfate
    Loïc Hugonin
    Department of Biochemistry and Biophysics, Arrhenius Laboratories for Natural Sciences, Stockholm University, SE 10691, Stockholm, Sweden
    Biochim Biophys Acta 1778:2580-7. 2008
    ..The induced aggregated alpha-helix of dynorphin A is also correlated with membrane perturbations, whereas the beta-sheet of dynorphin B does not correlate with membrane perturbations...
  23. doi request reprint Hydrolysis of the E2P phosphoenzyme of the Ca(2+)-ATPase: a theoretical study
    Maria E Rudbeck
    Department of Biochemistry and Biophysics, Arrhenius Laboratories, Stockholm University, 10691 Stockholm, Sweden
    J Phys Chem B 117:9224-32. 2013
    ..9 kcal/mol) and therefore reversible, in line with experimental findings. It is catalyzed by a preorganized active site with little movement of the nonreacting groups except for a rotation of Thr625 toward the phosphate group. ..
  24. doi request reprint Conformational changes of recombinant Ca2+-ATPase studied by reaction-induced infrared difference spectroscopy
    Saroj Kumar
    Department of Biochemistry and Biophysics, Stockholm University, Sweden
    FEBS J 280:5398-407. 2013
    ..It is now possible to apply this expression system together with IR spectroscopy to the investigation of the role of individual amino acids...
  25. ncbi request reprint Mapping interactions between the Ca2+-ATPase and its substrate ATP with infrared spectroscopy
    Man Liu
    Institut fur Biophysik, Johann Wolfgang Goethe Universitat, Theodor Stern Kai 7, Haus 74, D 60590 Frankfurt am Main, Germany
    J Biol Chem 278:10112-8. 2003
    ....
  26. ncbi request reprint Decarboxylation is a significant reaction pathway for photolabile calcium chelators and related compounds
    Andreas Barth
    Department of Biochemistry and Biophysics, Arrhenius Laboratories for Natural Sciences, Stockholm University, SE 106 91, Stockholm, Sweden
    Photochem Photobiol Sci 5:107-15. 2006
    ..Possible implications for precise details of calcium release from photolabile derivatives of EDTA and EGTA are discussed...
  27. pmc Characterization of a new caged proton capable of inducing large pH jumps
    Andreas Barth
    Institut fur Biophysik, Johann Wolfgang Goethe Universitat, D 60590 Frankfurt am Main, Germany
    Biophys J 83:2864-71. 2002
    ..This transition from the native conformation to a partially unfolded form takes place near pH 4 and was monitored by near-UV absorption spectroscopy...
  28. doi request reprint Time-resolved infrared spectroscopy of pH-induced aggregation of the Alzheimer Abeta(1-28) peptide
    Alex Perálvarez-Marín
    Department of Biochemistry and Biophysics, Stockholm University, Stockholm 10691, Sweden
    J Mol Biol 379:589-96. 2008
    ..6 s. This phase is followed by a second slower transition, which yields larger aggregates during 48.0 s...
  29. doi request reprint Formation of two different types of oligomers in the early phase of pH-induced aggregation of the Alzheimer Aβ(12-28) peptide
    Paulami Mandal
    Stockholm University, Department of Biochemistry and Biophysics, Arrhenius Laboratories, 10691 Stockholm, Sweden
    J Phys Chem B 116:12389-97. 2012
    ..These β sheets are antiparallel, planar, and large and show an absorption band at 1622 cm(-1) that shifts to 1617 cm(-1) in 12 min with most of the shift occurring in 10 s...
  30. doi request reprint Infrared spectrum of phosphoenol pyruvate: computational and experimental studies
    Maria E Rudbeck
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, SE 106 91 Stockholm, Sweden
    J Phys Chem A 113:2935-42. 2009
    ..These needed to be modeled with explicit water molecules. The effects of deuteration and of (13)C(2,3) labeling of PEP were reproduced by the calculations...
  31. doi request reprint Simulation of the amide I absorption of stacked β-sheets
    Eeva Liisa Karjalainen
    Department of Biochemistry and Biophysics, Arrhenius Laboratories of Natural Sciences, Stockholm University, SE 106 91, Sweden
    J Phys Chem B 115:749-57. 2011
    ..The study provides an aid in the interpretation of the IR amide I region for experiments involving β-sheets and creates awareness of the many effects that determine the spectrum of β-sheet structures...
  32. doi request reprint The allosteric effect of fructose bisphosphate on muscle pyruvate kinase studied by infrared spectroscopy
    Saroj Kumar
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, SE 106 91 Stockholm, Sweden
    J Phys Chem B 115:11501-5. 2011
    ..No such effects were observed with the other ion combinations Mn(2+)/K(+) and Mg(2+)/Na(+) or in D(2)O (with Mg(2+)/K(+)), and therefore we did not detect an allosteric effect on PEP binding under these conditions...
  33. doi request reprint Vibrational coupling between helices influences the amide I infrared absorption of proteins: application to bacteriorhodopsin and rhodopsin
    Eeva Liisa Karjalainen
    Department of Biochemistry and Biophysics, Arrhenius Laboratories of Natural Sciences, Stockholm University, Stockholm, Sweden
    J Phys Chem B 116:4448-56. 2012
    ..A further upshift of 4.0 cm(-1) occurs when BR monomers associate to trimers. We propose that interhelical vibrational coupling explains the experimentally observed unusually high wavenumber of the amide I band of BR...
  34. pmc Following enzyme activity with infrared spectroscopy
    Saroj Kumar
    Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
    Sensors (Basel) 10:2626-37. 2010
    ..The main advantage of the infrared method is that it observes the reaction of interest directly, i.e., no activity assay is required to convert the progress of the reaction into an observable quantity...
  35. doi request reprint Influence of the molecular environment on phosphorylated amino acid models: a density functional theory study
    Maria E Rudbeck
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, SE 106 91 Stockholm, Sweden
    J Phys Chem B 116:2751-7. 2012
    ..Lastly, calculations were performed on the active site of the Ca(2+)-ATPase E2P intermediate, which provide an example of how a protein environment facilitates the formation of a destabilized ground state...
  36. doi request reprint Anionic lipid binding to the foreign protein MGS provides a tight coupling between phospholipid synthesis and protein overexpression in Escherichia coli
    Candan Arioz
    Center for Biomembrane Research, Department of Biochemistry and Biophysics, Stockholm University, SE 106 91 Stockholm, Sweden
    Biochemistry 52:5533-44. 2013
    ..coli. By this mechanism, cells can produce more membrane surface in order to accommodate excessively produced MGS molecules, which results in an interdependent cycle of lipid and MGS protein synthesis. ..
  37. doi request reprint Optimization of model parameters for describing the amide I spectrum of a large set of proteins
    Eeva Liisa Karjalainen
    Department of Biochemistry and Biophysics, Arrhenius Laboratories of Natural Sciences, Stockholm University, SE 106 91, Sweden
    J Phys Chem B 116:4831-42. 2012
    ..Prediction of protein spectra using the optimized parameters resulted in good agreement with experimental spectra and in a considerable improvement compared to a description involving only transition dipole coupling. ..
  38. doi request reprint Use of creatine kinase to induce multistep reactions in infrared spectroscopic experiments
    Nadejda Eremina
    Department of Biochemistry and Biophysics, The Arrhenius Laboratories for Natural Sciences, Stockholm University, SE 106 91 Stockholm, Sweden
    J Phys Chem B 117:14967-72. 2013
    ..Upon phosphorylation of the ATPase, the β-sheet relaxes back to a structure that is intermediate between that adopted in the ADP bound state and that in the ATP bound state...
  39. doi request reprint Studies of decarboxylation in photolysis of alpha-carboxy-2-nitrobenzyl (CNB) caged compounds
    John E T Corrie
    MRC National Institute for Medical Research, The Ridgeway, Mill Hill, London, UK NW7 1AA
    Photochem Photobiol Sci 7:84-97. 2008
    ..The extent to which the latter pathway contributes is affected by the nature of buffer salts in the irradiated solution. It was more prominent in an amine-based buffer (MOPS) than in phosphate buffer...
  40. ncbi request reprint Photolytic cleavage of 1-(2-nitrophenyl)ethyl ethers involves two parallel pathways and product release is rate-limited by decomposition of a common hemiacetal intermediate
    John E T Corrie
    National Institute for Medical Research, The Ridgeway, Mill Hill, London NW7 1AA, UK
    J Am Chem Soc 125:8546-54. 2003
    ..These unusual results appear to be general for 1-(2-nitrophenyl)ethyl ethers and contrast with a related 2-nitrobenzyl ether that photolyzed without involvement of a long-lived hemiacetal...
  41. ncbi request reprint Flash photolytic release of alcohols from photolabile carbamates or carbonates is rate-limited by decarboxylation of the photoproduct
    George Papageorgiou
    National Institute for Medical Research, The Ridgeway, Mill Hill, London, UK NW7 1AA
    Photochem Photobiol Sci 4:216-20. 2005
    ..In general, alcohols protected as photolabile carbamate (or carbonate) derivatives will therefore be released too slowly for studies of the kinetics of millisecond time scale biological processes...
  42. ncbi request reprint Inhibition and partial reactions of Na,K-ATPase studied by Fourier transform infrared difference spectroscopy
    Michael Stolz
    Max Planck Institute of Biophysics, Max von Laue Strasse 3, Frankfurt D 60438, Germany
    Biopolymers 82:368-72. 2006
    ..We thus conclude that not the free enzyme but a phosphorylated state of the reaction cycle preferentially binds ouabain and leads to the loss of hydrolytic activity...
  43. ncbi request reprint Light-induced changes in the chemical bond structure of light-harvesting complex II probed by FTIR spectroscopy
    Hans Rogl
    Max Planck Institut fur Biophysik, Heinrich Hoffmann Strasse 7, D 60528 Frankfurt am Main, Germany
    Biochemistry 42:10223-8. 2003
    ..We conclude that there are no detectable light-induced changes in the LHC protein structure and attribute the observed IR signals to light-induced chlorophyll degradation...
  44. ncbi request reprint Selective block of sarcolemmal IKATP in human cardiomyocytes using HMR 1098
    Stefan Kaab
    LMU Munchen, Klinikum der Universität Grosshadern, Department of Medicine I, 81366 Munich, Germany
    Cardiovasc Drugs Ther 17:435-41. 2003
    ..The IK(ATP) inhibitor HMR1098 allows selective block of the sarcolemmal myocardial K(ATP)-channel in various animal species. Therefore, we studied the concentration and pH-dependence of HMR1098 in human ventricular myocytes...