PMCCPMCCPMCC

Search tips
Search criteria 

Advanced

 
Logo of jbtJBT IndexAssociation Homepage
 
J Biomol Tech. 1999 December; 10(4): 163–176.
PMCID: PMC2291609

Analytical ultracentrifugation as a contemporary biomolecular research tool

Full Text

The Full Text of this article is available as a PDF (155K).

Selected References

These references are in PubMed. This may not be the complete list of references from this article.
  • Schuster TM, Toedt JM. New revolutions in the evolution of analytical ultracentrifugation. Curr Opin Struct Biol. 1996 Oct;6(5):650–658. [PubMed]
  • Hensley P. Defining the structure and stability of macromolecular assemblies in solution: the re-emergence of analytical ultracentrifugation as a practical tool. Structure. 1996 Apr 15;4(4):367–373. [PubMed]
  • Hansen JC, Lebowitz J, Demeler B. Analytical ultracentrifugation of complex macromolecular systems. Biochemistry. 1994 Nov 15;33(45):13155–13163. [PubMed]
  • Cohen L, Delaney P, Boston P. Listening to the customer: implementing a patient satisfaction measurement system. Gastroenterol Nurs. 1994 Nov-Dec;17(3):110–115. [PubMed]
  • Johnson ML, Correia JJ, Yphantis DA, Halvorson HR. Analysis of data from the analytical ultracentrifuge by nonlinear least-squares techniques. Biophys J. 1981 Dec;36(3):575–588. [PubMed]
  • Demeler B, Saber H, Hansen JC. Identification and interpretation of complexity in sedimentation velocity boundaries. Biophys J. 1997 Jan;72(1):397–407. [PubMed]
  • Stafford WF., 3rd Boundary analysis in sedimentation transport experiments: a procedure for obtaining sedimentation coefficient distributions using the time derivative of the concentration profile. Anal Biochem. 1992 Jun;203(2):295–301. [PubMed]
  • Stafford WF., 3rd Boundary analysis in sedimentation velocity experiments. Methods Enzymol. 1994;240:478–501. [PubMed]
  • Stafford WF. Sedimentation velocity spins a new weave for an old fabric. Curr Opin Biotechnol. 1997 Feb 1;8(1):14–24. [PubMed]
  • Holladay LA. Simultaneous rapid estimation of sedimentation coefficient and molecular weight. Biophys Chem. 1980 Apr;11(2):303–308. [PubMed]
  • Holladay LA. An approximate solution to the Lamm equation. Biophys Chem. 1979 Sep;10(2):187–190. [PubMed]
  • Philo JS. An improved function for fitting sedimentation velocity data for low-molecular-weight solutes. Biophys J. 1997 Jan;72(1):435–444. [PubMed]
  • Behlke J, Ristau O. Molecular mass determination by sedimentation velocity experiments and direct fitting of the concentration profiles. Biophys J. 1997 Jan;72(1):428–434. [PubMed]
  • Demeler B, Saber H. Determination of molecular parameters by fitting sedimentation data to finite-element solutions of the Lamm equation. Biophys J. 1998 Jan;74(1):444–454. [PubMed]
  • Schuck P. Sedimentation analysis of noninteracting and self-associating solutes using numerical solutions to the Lamm equation. Biophys J. 1998 Sep;75(3):1503–1512. [PubMed]
  • Johnson ML, Faunt LM. Parameter estimation by least-squares methods. Methods Enzymol. 1992;210:1–37. [PubMed]
  • Milthorpe BK, Jeffrey PD, Nichol LW. The direct analysis of sedimentation equilibrium results obtained with polymerizing systems. Biophys Chem. 1975 Apr;3(2):169–176. [PubMed]
  • YPHANSTIS DA. Rapid determination of molecular weights of peptides and preteins. Ann N Y Acad Sci. 1960 Aug 31;88:586–601. [PubMed]
  • Minton AP. Analytical centrifugation with preparative ultracentrifuges. Anal Biochem. 1989 Feb 1;176(2):209–216. [PubMed]
  • Darawshe S, Rivas G, Minton AP. Rapid and accurate microfractionation of the contents of small centrifuge tubes: application in the measurement of molecular weight of proteins via sedimentation equilibrium. Anal Biochem. 1993 Feb 15;209(1):130–135. [PubMed]
  • Winzor DJ, Jacobsen MP, Wills PR. Direct analysis of sedimentation equilibrium distributions reflecting complex formation between dissimilar reactants. Biochemistry. 1998 Feb 24;37(8):2226–2233. [PubMed]
  • Garcia de la Torre J, Navarro S, Lopez Martinez MC, Diaz FG, Lopez Cascales JJ. HYDRO: a computer program for the prediction of hydrodynamic properties of macromolecules. Biophys J. 1994 Aug;67(2):530–531. [PubMed]
  • Byron O. Construction of hydrodynamic bead models from high-resolution X-ray crystallographic or nuclear magnetic resonance data. Biophys J. 1997 Jan;72(1):408–415. [PubMed]
  • Carruthers LM, Bednar J, Woodcock CL, Hansen JC. Linker histones stabilize the intrinsic salt-dependent folding of nucleosomal arrays: mechanistic ramifications for higher-order chromatin folding. Biochemistry. 1998 Oct 20;37(42):14776–14787. [PubMed]
  • Rogers DP, Roberts LM, Lebowitz J, Datta G, Anantharamaiah GM, Engler JA, Brouillette CG. The lipid-free structure of apolipoprotein A-I: effects of amino-terminal deletions. Biochemistry. 1998 Aug 25;37(34):11714–11725. [PubMed]
  • Fleming KG, Hohl TM, Yu RC, Müller SA, Wolpensinger B, Engel A, Engelhardt H, Brünger AT, Söllner TH, Hanson PI. A revised model for the oligomeric state of the N-ethylmaleimide-sensitive fusion protein, NSF. J Biol Chem. 1998 Jun 19;273(25):15675–15681. [PubMed]
  • Rippe K, Mücke N, Schulz A. Association states of the transcription activator protein NtrC from E. coli determined by analytical ultracentrifugation. J Mol Biol. 1998 May 22;278(5):915–933. [PubMed]
  • Rosenfeld RD, Zeni L, Welcher AA, Narhi LO, Hale C, Marasco J, Delaney J, Gleason T, Philo JS, Katta V, et al. Biochemical, biophysical, and pharmacological characterization of bacterially expressed human agouti-related protein. Biochemistry. 1998 Nov 17;37(46):16041–16052. [PubMed]
  • Zubrzycki IZ, Frankel LK, Russo PS, Bricker TM. Hydrodynamic studies on the manganese-stabilizing protein of photosystem II. Biochemistry. 1998 Sep 29;37(39):13553–13558. [PubMed]
  • Rich RL, Demeler B, Ashby K, Deivanayagam CC, Petrich JW, Patti JM, Narayana SV, Hök M. Domain structure of the Staphylococcus aureus collagen adhesin. Biochemistry. 1998 Nov 3;37(44):15423–15433. [PubMed]
  • Tse C, Fletcher TM, Hansen JC. Enhanced transcription factor access to arrays of histone H3/H4 tetramer.DNA complexes in vitro: implications for replication and transcription. Proc Natl Acad Sci U S A. 1998 Oct 13;95(21):12169–12173. [PubMed]
  • Fless GM, Kirk EW, Klezovitch O, Santiago JY, Edelstein C, Hoover-Plow J, Scanu AM. Effect of phospholipase A2 digestion on the conformation and lysine/fibrinogen binding properties of human lipoprotein[a]. J Lipid Res. 1999 Apr;40(4):583–592. [PubMed]
  • Wagschal K, Tripet B, Hodges RS. De novo design of a model peptide sequence to examine the effects of single amino acid substitutions in the hydrophobic core on both stability and oligomerization state of coiled-coils. J Mol Biol. 1999 Jan 15;285(2):785–803. [PubMed]
  • Gutierrez MM, Tsai SW, Phillips ML, Curtiss LK, Milne RW, Schumaker VN. Studying low-density lipoprotein-monoclonal antibody complexes using dynamic laser light scattering and analytical ultracentrifugation. Biochemistry. 1999 Jan 26;38(4):1284–1292. [PubMed]
  • Tse C, Hansen JC. Hybrid trypsinized nucleosomal arrays: identification of multiple functional roles of the H2A/H2B and H3/H4 N-termini in chromatin fiber compaction. Biochemistry. 1997 Sep 23;36(38):11381–11388. [PubMed]
  • Kery V, Poneleit L, Meyer JD, Manning MC, Kraus JP. Binding of pyridoxal 5'-phosphate to the heme protein human cystathionine beta-synthase. Biochemistry. 1999 Mar 2;38(9):2716–2724. [PubMed]
  • Tse C, Sera T, Wolffe AP, Hansen JC. Disruption of higher-order folding by core histone acetylation dramatically enhances transcription of nucleosomal arrays by RNA polymerase III. Mol Cell Biol. 1998 Aug;18(8):4629–4638. [PMC free article] [PubMed]
  • Logie C, Tse C, Hansen JC, Peterson CL. The core histone N-terminal domains are required for multiple rounds of catalytic chromatin remodeling by the SWI/SNF and RSC complexes. Biochemistry. 1999 Feb 23;38(8):2514–2522. [PubMed]
  • Kar SR, Adams AC, Lebowitz J, Taylor KB, Hall LM. The cyanobacterial repressor SmtB is predominantly a dimer and binds two Zn2+ ions per subunit. Biochemistry. 1997 Dec 9;36(49):15343–15348. [PubMed]
  • Fletcher TM, Serwer P, Hansen JC. Quantitative analysis of macromolecular conformational changes using agarose gel electrophoresis: application to chromatin folding. Biochemistry. 1994 Sep 13;33(36):10859–10863. [PubMed]
  • Fletcher TM, Hansen JC. Core histone tail domains mediate oligonucleosome folding and nucleosomal DNA organization through distinct molecular mechanisms. J Biol Chem. 1995 Oct 27;270(43):25359–25362. [PubMed]
  • Behal RH, DeBuysere MS, Demeler B, Hansen JC, Olson MS. Pyruvate dehydrogenase multienzyme complex. Characterization of assembly intermediates by sedimentation velocity analysis. J Biol Chem. 1994 Dec 16;269(50):31372–31377. [PubMed]
  • Mendoza JA, Demeler B, Horowitz PM. Alteration of the quaternary structure of cpn60 modulates chaperonin-assisted folding. Implications for the mechanism of chaperonin action. J Biol Chem. 1994 Jan 28;269(4):2447–2451. [PubMed]
  • Musatov A, Robinson NC. Detergent-solubilized monomeric and dimeric cytochrome bc1 isolated from bovine heart. Biochemistry. 1994 Nov 8;33(44):13005–13012. [PubMed]
  • Anant JS, Desnoyers L, Machius M, Demeler B, Hansen JC, Westover KD, Deisenhofer J, Seabra MC. Mechanism of Rab geranylgeranylation: formation of the catalytic ternary complex. Biochemistry. 1998 Sep 8;37(36):12559–12568. [PubMed]
  • Liu J, Laue TM, Choi HU, Tang LH, Rosenberg L. The self-association of biglycan from bovine articular cartilage. J Biol Chem. 1994 Nov 11;269(45):28366–28373. [PubMed]
  • McLachlin DT, Bestard JA, Dunn SD. The b and delta subunits of the Escherichia coli ATP synthase interact via residues in their C-terminal regions. J Biol Chem. 1998 Jun 12;273(24):15162–15168. [PubMed]
  • Toedt JM, Braswell EH, Schuster TM, Yphantis DA, Taraporewala ZF, Culver JN. Biophysical characterization of a designed TMV coat protein mutant, R46G, that elicits a moderate hypersensitivity response in Nicotiana sylvestris. Protein Sci. 1999 Feb;8(2):261–270. [PubMed]
  • Hsu YR, Nybo R, Sullivan JK, Costigan V, Spahr CS, Wong C, Jones M, Pentzer AG, Crouse JA, Pacifici RE, et al. Heparin is essential for a single keratinocyte growth factor molecule to bind and form a complex with two molecules of the extracellular domain of its receptor. Biochemistry. 1999 Feb 23;38(8):2523–2534. [PubMed]
  • Fujita T, Ralston GB, Morris MB. Biophysical properties of human erythrocyte spectrin at alkaline pH: implications for spectrin structure, function, and association. Biochemistry. 1998 Jan 6;37(1):264–271. [PubMed]
  • Leroux MR, Melki R, Gordon B, Batelier G, Candido EP. Structure-function studies on small heat shock protein oligomeric assembly and interaction with unfolded polypeptides. J Biol Chem. 1997 Sep 26;272(39):24646–24656. [PubMed]
  • Fletcher TM, Krishnan U, Serwer P, Hansen JC. Quantitative agarose gel electrophoresis of chromatin: nucleosome-dependent changes in charge, sharp, and deformability at low ionic strength. Biochemistry. 1994 Mar 1;33(8):2226–2233. [PubMed]
  • Schwarz PM, Felthauser A, Fletcher TM, Hansen JC. Reversible oligonucleosome self-association: dependence on divalent cations and core histone tail domains. Biochemistry. 1996 Apr 2;35(13):4009–4015. [PubMed]
  • Syto R, Murgolo NJ, Braswell EH, Mui P, Huang E, Windsor WT. Structural and biological stability of the human interleukin 10 homodimer. Biochemistry. 1998 Dec 1;37(48):16943–16951. [PubMed]
  • Saez C, Thielens NM, Bjes ES, Esser AF. Association of terminal complement proteins in solution and modulation by suramin. Biochemistry. 1999 May 25;38(21):6807–6816. [PubMed]
  • Tennyson RB, Lindsley JE. Type II DNA topoisomerase from Saccharomyces cerevisiae is a stable dimer. Biochemistry. 1997 May 20;36(20):6107–6114. [PubMed]
  • Wu X, Spiro C, Owen WG, McMurray CT. cAMP response element-binding protein monomers cooperatively assemble to form dimers on DNA. J Biol Chem. 1998 Aug 14;273(33):20820–20827. [PubMed]
  • Zhong M, Kim SJ, Wu C. Sensitivity of Drosophila heat shock transcription factor to low pH. J Biol Chem. 1999 Jan 29;274(5):3135–3140. [PubMed]
  • Daugherty MA, Brenowitz M, Fried MG. The TATA-binding protein from Saccharomyces cerevisiae oligomerizes in solution at micromolar concentrations to form tetramers and octamers. J Mol Biol. 1999 Jan 29;285(4):1389–1399. [PubMed]
  • Cole JL. Characterization of human cytomegalovirus protease dimerization by analytical centrifugation. Biochemistry. 1996 Dec 3;35(48):15601–15610. [PubMed]
  • Steinmetzer K, Behlke J, Brantl S. Plasmid pIP501 encoded transcriptional repressor CopR binds to its target DNA as a dimer. J Mol Biol. 1998 Oct 30;283(3):595–603. [PubMed]
  • Rusinova E, Ross JB, Laue TM, Sowers LC, Senear DF. Linkage between operator binding and dimer to octamer self-assembly of bacteriophage lambda cI repressor. Biochemistry. 1997 Oct 21;36(42):12994–13003. [PubMed]
  • Parker MH, Stafford WF, 3rd, Prevelige PE., Jr Bacteriophage P22 scaffolding protein forms oligomers in solution. J Mol Biol. 1997 May 9;268(3):655–665. [PubMed]
  • Abril AM, Salas M, Andreu JM, Hermoso JM, Rivas G. Phage phi29 protein p6 is in a monomer-dimer equilibrium that shifts to higher association states at the millimolar concentrations found in vivo. Biochemistry. 1997 Sep 30;36(39):11901–11908. [PubMed]
  • Begg GE, Morris MB, Ralston GB. Comparison of the salt-dependent self-association of brain and erythroid spectrin. Biochemistry. 1997 Jun 10;36(23):6977–6985. [PubMed]
  • Vulevic B, Lobert S, Correia JJ. Role of guanine nucleotides in the vinblastine-induced self-association of tubulin: effects of guanosine alpha,beta-methylenetriphosphate and guanosine alpha,beta-methylenediphosphate. Biochemistry. 1997 Oct 21;36(42):12828–12835. [PubMed]
  • Lobert S, Ingram JW, Hill BT, Correia JJ. A comparison of thermodynamic parameters for vinorelbine- and vinflunine-induced tubulin self-association by sedimentation velocity. Mol Pharmacol. 1998 May;53(5):908–915. [PubMed]
  • Shi J, Ghirlando R, Beavil RL, Beavil AJ, Keown MB, Young RJ, Owens RJ, Sutton BJ, Gould HJ. Interaction of the low-affinity receptor CD23/Fc epsilonRII lectin domain with the Fc epsilon3-4 fragment of human immunoglobulin E. Biochemistry. 1997 Feb 25;36(8):2112–2122. [PubMed]
  • Darawshe S, Millar DB, Ahmed SA, Miles EW, Minton AP. Dissociation equilibria of the tryptophan synthase alpha 2 beta 2 complex in saline buffer and guanidine isothiocyanate, as studied by sedimentation equilibrium. Biophys Chem. 1997 Nov;69(1):53–62. [PubMed]
  • Cole JL, Carroll SS, Blue ES, Viscount T, Kuo LC. Activation of RNase L by 2',5'-oligoadenylates. Biophysical characterization. J Biol Chem. 1997 Aug 1;272(31):19187–19192. [PubMed]
  • Beernink HT, Morrical SW. The uvsY recombination protein of bacteriophage T4 forms hexamers in the presence and absence of single-stranded DNA. Biochemistry. 1998 Apr 21;37(16):5673–5681. [PubMed]
  • Laue TM, Stafford WF., 3rd Modern applications of analytical ultracentrifugation. Annu Rev Biophys Biomol Struct. 1999;28:75–100. [PubMed]

Articles from Journal of Biomolecular Techniques : JBT are provided here courtesy of The Association of Biomolecular Resource Facilities