Cân bằng lắng: một công cụ quý giá để nghiên cứu tương tác đồng nhất và dị nhất của protein hoặc protein và axit nucleic

European Biophysics Journal - Tập 32 - Trang 427-431 - 2003
Joachim Behlke1, Otto Ristau2
1Max-Delbrück Center for Molecular Medicine, Berlin, Germany
2Max-Delbrück-Center for Molecular Medicine, Berlin, Germany

Tóm tắt

Chúng tôi trình bày một cái nhìn tổng quan ngắn gọn về kinh nghiệm của mình trong việc phân tích độ affin và tỉ lệ phối trí của các tương tác tự liên kết và dị liên kết thông qua việc sử dụng kỹ thuật cân bằng lắng. Quy trình thu thập dữ liệu và quy trình phù hợp sử dụng các chương trình máy tính mà chúng tôi đã phát triển, Polymole và Virial, được sử dụng để đạt được những kết quả đáng tin cậy dưới cả điều kiện lý tưởng và không lý tưởng. Những dữ liệu này thu được từ các macromolecule quan trọng sinh học sẽ hữu ích trong việc hiểu các sự kiện sinh lý học như sự điều tiết tế bào.

Từ khóa

#cân bằng lắng #tương tác protein #macromolecule #điều tiết tế bào #kỹ thuật lắng

Tài liệu tham khảo

Arkin M, Lear JD (2001) A new data analysis method to determine binding constants of small molecules to proteins using equilibrium analytical ultracentrifugation with absorption optics. Anal Biochem 299:98–107 Bär J, Behlke J, Huse K, Schulz W, Kopperschläger G (1988) Phosphofructokinase from bakers yeast: properties of a proteolytically modified active enzyme form. Int J Biol Macromol 10:99–105 Behlke J, Ristau O (1997) Analysis of interacting biopolymer systems by analytical ultracentrifugation. Eur Biophys J 25:325–332 Behlke J, Ristau O (2000) Analysis of protein self-association under conditions of the thermodynamic nonideality. Biophys Chem 87:1-13 Behlke J, Ristau O, Schönfeld H-J (1997) Nucleotide-dependent complex formation between the Escherichia coli chaperonins GroEL and GroES studied under equilibrium conditions. Biochemistry 36:5149–5156 Behlke J, Heidrich K, Naumann M, Müller EC, Otto A, Reuter R, Kriegel T (1998) Hexokinase 2 from Saccharomyces cerevisiae: regulation of oligomeric structure by in-vivo phosphorylation at serine-14. Biochemistry 37:11989–11995 Behlke J, Labudde D, Ristau O (2001) Self-association studies on the EphB2 receptor SAM domain using analytical ultracentrifugation. Eur Biophys J 30:411–415 Benndorf R, Hayess K, Ryazantsev S, Wieske M, Behlke J, Lutsch G (1994) Phosphorylation and supramolecular organization of murine small heat shock protein HSP25 abolish its actin polymerization-inhibiting activity. J Biol Chem 269:20780–20784 Boublik T, Nezbeda I (1986) P-V-T behaviour of hard body fluids. Theory and experiment. Collect Czech Chem Commun 51:2301–2432 Casassa EF, Eisenberg H (1961) Partial specific volumes and refractive index increments in multicomponent systems. J Phys Chem 65:427–435 Casassa EF, Eisenberg H (1964) Thermodynamic analysis of multicomponent solutions. Adv Protein Chem 19:287–395 Golbik R, Naumann M, Otto A, Müller EC, Behlke J, Reuter R, Hübner G, Kriegel TM (2001) Regulation of phosphotransferase activity of hexokinase 2 from Sacchoromyces cerevisia by modification at serine-14. Biochemistry 40:1083–1090 Haschemeyer RH, Bowers WH (1970) Exponential analysis of concentration or concentration difference for discrete molecular weight distributions in sedimentation equilibrium. Biochemistry 9:435–445 Hill TL, Chen YD (1973) Theory of aggregation in solution. I. General equations and application to the stacking of bases, nucleotides, etc. Biopolymers 12:1285–1312 Hohaus A, Person V, Behlke J, Schaper J, Morano I, Haase H (2002) The C-terminal region of ahnak provides a link between cardiac L-type Ca2+channels and the actin-based cytoskeleton. FASEB J 16:1205–1216 Johnson ML, Coreira JJ, Yphantis DA, Halvorson HR (1981) Analysis of data from the analytical ultracentrifuge by nonlinear least-squares techniques. Biophys J 36:575–588 Kisker C, Schindelin H, Alber BE, Ferry JG, Rees DC (1996) A left-handed β-helix revealed by the crystal structure of a carbonic anhydrase from the archeon Methanosarcina thermophila. EMBO J 15:2323–2330 Krafft C, Diehl A, Lättig S, Behlke J, Heinemann U, Pon CL, Gualerzi C, Welfle H (2000) Interaction of fMet-tRNAMet with the C-terminal domain of translational initiation factor IF2 from Bacillus stearothermophilus. FEBS Lett 471:128–132 Laue TM, Stafford WF (1999) Modern applications of analytical ultracentrifugation. Annu Rev Biophys Biomol Struct 28:75–100 Lewis MS, Shrager RI, Kim S-J (1994) Analysis of protein-nucleic acid and protein-protein interactions using multi-wavelength scans from the XL-A analytical ultracentrifuge. In: Schuster TM, Laue TM (eds) Modern analytical ultracentrifugation. Birkhauser, Boston, Mass., pp 94–115 McMillan WG, Mayer JE (1945) The statistical thermodynamics of multicomponent systems. J Chem Phys 13:276–305 Minton AP (1990) Quantitative characterization of reversible molecular associations via analytical centrifugation. Anal Biochem190:1-6 Minton AP (1994) Conservation of signal: a new algorithm for the elimination of the reference concentration as an independently variable parameter in the analysis of sedimentation equilibrium. In: Schuster TM, Laue TM (eds) Modern analytical ultracentrifugation. Birkhauser, Boston, Mass., pp 81–93 Minton AP (1997) Alternative strategies for the characterization of associations in multicomponent solutions via measurement of sedimentation equilibrium. Prog Colloid Polym Sci 107:11–19 Philo JS (2000) Sedimentation equilibrium analysis of mixed associations using numerical constraints to impose mass or signal conservation. Methods Enzymol 321:100–120 Rivas R, Stafford W, Minton AP (1999) Characterization of heterologous protein-protein interactions using analytical ultracentrifugation. Methods 19:194–212 Schade M, Behlke J, Löwenhaupt K, Herbert A, Rich A, Oschkinat H (1999) A 6 bp Z-DNA hairpin binds two Zα domains from the human RNA editing enzyme ADAR1. FEBS Lett 458:27–31 Schwartz T, Behlke J, Löwenhaupt K, Heinemann U, Rich A (2001) Structure of the DLM-1:Z-DNA complex reveals common recognition features within a conversed family of Z-DNA-binding proteins. Nat Struct Biol 8:761–765 Smalla M, Schmieder P, Kelly M, Ter Laak A, Krause G, Ball L, Wahl M, Bork P, Oschkinat H (1999) Solution structure of the receptor tyrosine kinase EphB2 SAM domain and identification of two distinct homotypic interaction sites. Protein Sci 8:1954–1961 Sossong TM Jr, Brigham-Burke MR, Hensley P, Pearce KH Jr (1999) Self-activation of guanosine triphosphatase activity by oligomerization of the bacterial cell division protein FtsZ. Biochemistry 38:14843–14850 Steinmetzer K, Behlke J, Brantl S (1998) Plasmid pIP501 encoded transcriptional repressor CopR binds to its target DNA a dimer. J Mol Biol 283: 595–603 Svedberg T, Pedersen KO (1940) Die Ultrazentrifuge. Steinkopff, Dresden Tiselius A (1926) Über die berechnung thermodynamischer eigenschaften von kolloidalen lösungen mit der ultrazentrifuge. Z Physik Chem (T) 124:449–463 Wills PR, Jacobsen MP, Winzor DJ (1996) Direct analysis of solute self-association by sedimentation equilibrium. Biopolymers 38:119–130 Winzor DJ, Jacobsen MP, Wills PR (1999) Allowance for the thermodynamic nonideality in the analysis of sedimentation equilibrium distributions reflecting complex formation between dissimilar reactants. Prog Colloid Polym Sci 113:69–75 Wyman J, Gill SJ (1990) Binding and linkage. University Science Books, Mill Valley, Calif