Anatomy of an antibody molecule: Structure, kinetics, thermodynamics and mutational studies of the antilysozyme antibody D1.3

Immunological Reviews

Volumn 163, Issue , 1998, Pages 45-57

  Braden, Bradford C ^a,b   Goldman, Ellen R ^a   Mariuzza, Roy A ^a   Poljak, Roberto J ^a  

^a UNIVERSITY OF MARYLAND BIOTECHNOLOGY INSTITUTE   (United States)

^b BOWIE STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANTIGEN; ENZYME ANTIBODY; LYSOZYME; MUTANT PROTEIN; SOLVENT;

ANTIBODY STRUCTURE; ANTIGEN ANTIBODY COMPLEX; ENTHALPY; ENTROPY; HYDRATION; HYDROGEN BOND; KINETICS; MICROCALORIMETRY; PRIORITY JOURNAL; REVIEW; SEDIMENTATION RATE; SITE DIRECTED MUTAGENESIS; STRUCTURE ACTIVITY RELATION; THERMODYNAMICS; X RAY CRYSTALLOGRAPHY;

ALANINE; ANIMALS; ANTIBODIES; CRYSTALLOGRAPHY, X-RAY; HUMANS; IMMUNOGLOBULIN FRAGMENTS; IMMUNOGLOBULIN VARIABLE REGION; KINETICS; MURAMIDASE; MUTAGENESIS, SITE-DIRECTED; PROTEIN CONFORMATION; THERMODYNAMICS;

EID: 0031868554     PISSN: 01052896     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1600-065X.1998.tb01187.x     Document Type: Review

References (45)

1. Poljak RJ, Amzel LM, Avey HP, Chen BL, Phizackerly RP. Three-dimensional structure of the Fab' fragment of a human immunoglobulin at 2.8 Å resolution. Proc Natl Acad Sci USA 1973;70:3305-3310.
2. Harper M, Lema F, Boulot G, Poljak RJ. Antigen specificity and cross-reactivity of monoclonal anti-lysozyme antibodies. Mol Immunol 1987;24:97-108.
3. Amit AG, Mariuzza RA, Phillips SEV, Poljak RA. Three-dimensional structure of an antigen-antibody complex at 2.8 Å resolution. Science 1986;233:747-753.
4. Fischmann TO, et al. Crystallographic refinement of the three-dimensional structure of the FabD1.3-lysozyme complex at 2.5Å resolution. J Biol Chem 1991;266:12915-12920.
5. Bhat TN, Bentley GA, Fischmann TO, Boulot G, Poljafc RJ. Small rearrangements in structures of Fv and Fab fragments of antibody D1.3 on antigen binding. Nature 1990;347:483-485.
6. Bhat TN, et al. Bound water molecules and conformational stabilization help mediate an antigen-antibody association. Proc Natl Acad Sci USA 1994;91:1089-1093.
7. Ward ES, Güssow D, Griffiths AD, Jones PT, Winter G. Binding activities of a repertoire of single immunoglobulin variable domains secreted from Echerichia coli. Nature 1989;341:544-546.
8. Boulot G, et al. Crystallization and preliminary x-ray diffraction study of the bacterially expressed Fv from the monoclonal anti-lysozyme antibody D1.3 and of its complex with the antigen, lysozyme. J Mol Biol 1990;213:617-619.
9. Dall'Acqua W, Goldman ER, Eisenstein E, Mariuzza RA. A mutational analysis of the binding of two different proteins to the same antibody. Biochemistry 1996;35:9667-9676.
10. Tello D, Goldbaum FA, Mariuzza RA, Ysern X, Schwarz FP, Poljak RJ. Three-dimensional structure and thermodynamics of antigen binding by anti-lysozyme antibodies. Biochem Soc Trans 1993;21:943-946.
11. Braden BC, Fields BA, Poljak RJ. Conservation of water molecules in an antibody-antigen interaction. J Mol Recognit 1995;8:317-325.
12. Columbo MF, Rau DC, Parsegian VA. Protein solvation in allosteric regulation: a water effect on hemoglobin. Science 1992;256:655-659.
13. Kornblatt J, Kornblatt MJ, Hui Bon Hoa G, Mauk AG. Response of two protein-protein complexes to solvent stress: does water play a role at the interface? Biophys J 1993;65:1059-1065.
14. Dzingeleski GD, Wolfenden R. Hypersensitivity of an enzyme reaction to solvent water. Biochemistry 1993;32:9143-9147.
15. Karlsson R, Michaelsson A, Mattsson L. Kinetic analysis of monoclonal antibody-antigen interactions with a new biosensor based analytical system. J Immunol Methods 1991;145:229-240.
16. Goldbaum FA, Schwarz FP, Eisenstein E, Cauerhff A, Mariuzza RA, Poljak RJ. The effect of water activity on the association constants and the enthalpy of reaction between lysozyme and the specific antibodies D1.3 and D44.1. J Mol Recognit 1996;9:6-12.
17. Kauzman W. Some factors in the interpretation of protein denaturation. Adv Protein Chem 1959;14:1-63.
18. Tanford C. Protein denaturation. Adv Protein Chem 1968;23:121-242.
19. Eriksson AE, Basse WA, Wozniak JA, Matthews BW. A cavity-containing mutant of T4 lysozyme is stabilized by buried benzene. Nature 1992;355:371-373.
20. Eriksson AE, et al. Response of a protein structure to cavity-creating mutations and its relation to the hydrophobic effect. Science 1992;255:178-183.
21. Chothia C. Hydrophobic bonding and accessible surface area in proteins. Nature 1974;248:338-339.
22. Livingstone JR, Spolar RS, Record MT Jr. Contribution to the thermodynamics of protein folding from the reduction in water-accessible nonpolar surface area. Biochemistry 1991;30:4237-4244.
23. McDonald IK, Thornton JM. Satisfying hydrogen bonding potential in proteins. J Mol Biol 1994;238:777-793.
24. Fersht AR. The hydrogen bond in molecular recognition. Trends Biochem Sci 1987;12:301-304.
25. Fersht AR, et al. Hydrogen bonding and biological specificity analysed by protein engineering. Nature 1985;314:235-238.
26. Ysern X, et al. Solvent rearrangement in an antigen-antibody interface introduced by site-directed mutagenesis of the antibody combining site. J Mol Biol 1994;238:496-500.
27. Eisenberg D, McLachlan AD. Solvation energy in protein folding and binding. Nature 1986;319:199-203.
28. Nicholls A, Sharp KA, Honig B. Protein folding and association: insights from the interfacial and thermodynamic properties of hydrocarbons. Proteins 1991;11:281-296.
29. Fields BA, et al. Hydrogen bonding and solvent structure in an antigen-antibody interface. Crystal structures and thermodynamic characterization of three Fv mutants complexed with lysozyme. Biochemistry 1996;35:15494-15503.
30. Cunningham BC, Wells JA. Comparison of a structural and functional epitope. J Mol Biol 1993;234:554-563.
31. Clackson T, Wells JA. A hot spot of binding energy in a hormone-receptor interface. Science 1995;267:383-386.
32. Jin L, Fendly B, Wells JA. High resolution functional analysis of antibody-antigen interactions. J Mol Biol 1992;226:851-865.
33. Kelley RF, O'Connell MP. Thermodynamic analysis of an antibody functional epitope. Biochemistry 1993;32:6828-6835.
34. Ito W, Iba Y, Kurosawa Y. Effects of substitutions of closely related amino acids at the contact surface in an antigen-antibody complex on the thermodynamic parameters. J Biol Chem 1993;268:16639-16647.
35. Novotny J, Bruccoleri RE, Saul FA. On the attribution of binding energy in antigen-antibody complexes McPC603, D1.3. and HyHEL-5. Biochemistry 1989;28:4735-4749.
36. Tulip WR, Harley VR, Webster RG, Novotny J. N9 neuraminidase complexes with antibodies NC41 and NC10: empirical free energy calculations capture specificity trends observed with mutant binding data. Biochemistry 1994;33:7986-7997.
37. Dall'Acqua W, et al. A mutational analysis of binding interactions in an antigen-antibody protein-protein complex. Biochemistry 1998 (In press).
38. Carter PJ, Winter G, Wilkinson AJ, Fersht AR. The use of double mutants to dectect structural changes in the active site of tyrosyl-tRNA synthetase. Cell 1984;38:835-840.
39. Ackers GK, Smith FR. Effects of site-specific amino acid modification on protein interaction and biological function. Annu Rev Biochem 1985;54:597-629.
40. Horovitz A. Non-additivity in protein-protein interactions. J Mol Biol 1987;196:733-735.
41. Goldman ER, Dall'Acqua W, Braden BC, Mariuzza RA. Analysis of binding interactions in an idiotope-antiidiotope protein-protein complex by double mutant cycles. Biochemistry 1997;36:49-56.
42. Schreiber G, Fersht AR. Energetics of protein-protein interactions: analysis of the barnase-barstar interface by single mutations and double mutant cycles. J Mol Biol 1995;248:478-186.
43. Levitt M, Perutz MF. Aromatic rings act as hydrogen bond acceptors. J Mol Biol 1988;201:751-754.
44. Braden BC, et al. Crystal structure of an Fv-Fv idiotope-antiidiotope complex at 1.9 Å resolution. J Mol Biol 1996;264:137-151.
45. Gmehling FA, Onken U, Arlt W. Vapor-liquid equilibrium data collection (Suppl 1). In: Behrens D, Eckermann R, eds. Chemistry data series, Vol 1, Part 1a. Frankfurt: Dechema;1977.