Crystal Structure of Ser-22/Ile-25 Form Crambin Confirms Solvent, Side Chain Substate Correlations*

It is not agreed that correlated positions of disordered protein side chains (substate correlations) can be deduced from diffraction data. The pure Ser-22/Ile-25 (SI form) crambin crystal structure confirms correlations deduced for the natural, mixed sequence form of crambin crystals. Physical separation of the mixed form into pure SI form and Pro-22/Leu-25 (PL form) crambin and the PL form crystal structure determination (Yamano, A., and Teeter, M. M. (1994) J. Biol. Chem. 269, 13956-13965) support the proposed (Teeter, M. M., Roe, S. M., and Heo, N. H. (1993) J. Mol. Biol. 230, 292-311) correlation model. Electron density of mixed form crambin crystals shows four possible pairs of side chain conformations for heterogeneous residue 22 and nearby Tyr-29 (22 = 4, two conformations for each of two side chains). One combination can be eliminated because of short van der Waals' contacts. However, only two alternates have been postulated to exist in mixed form crambin: Pro-22/Tyr-29A and Ser-22/Tyr-29B. In crystals of the PL form, Pro-22 and Tyr-29A are found to be in direct van der Waals' contact (Yamano, A., and Teeter, M. M. (1994) J. Biol. Chem. 269, 13956-13965). Comparison of the SI form structure with the mixed form electron density confirms that the fourth combination of side chains does not occur and that side chain correlations are mediated by water networks.

[1]  J. L. Smith,et al.  Structural heterogeneity in protein crystals. , 1986, Biochemistry.

[2]  Alexander McPherson,et al.  Preparation and analysis of protein crystals , 1982 .

[3]  W A Hendrickson,et al.  Highly ordered crystals of the plant seed protein crambin. , 1979, Journal of molecular biology.

[4]  M. Teeter,et al.  Primary structure of the hydrophobic plant protein crambin. , 1981, Biochemistry.

[5]  Wayne A. Hendrickson,et al.  Structure of the hydrophobic protein crambin determined directly from the anomalous scattering of sulphur , 1981, Nature.

[6]  Wayne A. Hendrickson,et al.  A restrained-parameter thermal-factor refinement procedure , 1980 .

[7]  H. Hope Cryocrystallography of biological macromolecules: a generally applicable method. , 1988, Acta crystallographica. Section B, Structural science.

[8]  M. Teeter,et al.  Water-protein interactions: theory and experiment. , 1991, Annual review of biophysics and biophysical chemistry.

[9]  H Frauenfelder,et al.  Ligand binding to heme proteins: the effect of light on ligand binding in myoglobin. , 1994, Biochemistry.

[10]  A T Brünger,et al.  Do NOE distances contain enough information to assess the relative populations of multi-conformer structures? , 1996, Journal of biomolecular NMR.

[11]  D L Caspar,et al.  Problems in simulating macromolecular movements. , 1995, Structure.

[12]  B M Pettitt,et al.  A sampling problem in molecular dynamics simulations of macromolecules. , 1995, Proceedings of the National Academy of Sciences of the United States of America.

[13]  S. Roe,et al.  Atomic resolution (0.83 A) crystal structure of the hydrophobic protein crambin at 130 K. , 1993, Journal of molecular biology.

[14]  H. Schenk,et al.  Computing in Crystallography , 1978 .

[15]  Full-matrix refinement of the protein crambin at 0.83 A and 130 K. , 1995, Acta crystallographica. Section D, Biological crystallography.

[16]  J. Clarage,et al.  Liquid-like movements in crystalline insulin , 1988, Nature.

[17]  T. Pollard,et al.  Annual review of biophysics and biophysical chemistry , 1985 .

[18]  R M Sweet,et al.  Correlations of atomic movements in lysozyme crystals , 1992, Proteins.

[19]  H Frauenfelder,et al.  Spectroscopic evidence for conformational relaxation in myoglobin. , 1992, Proceedings of the National Academy of Sciences of the United States of America.

[20]  Jones Ta,et al.  Diffraction methods for biological macromolecules. Interactive computer graphics: FRODO. , 1985, Methods in enzymology.

[21]  M. Teeter,et al.  Water structure of a hydrophobic protein at atomic resolution: Pentagon rings of water molecules in crystals of crambin. , 1981, Proceedings of the National Academy of Sciences of the United States of America.

[22]  Correlated disorder of the pure Pro22/Leu25 form of crambin at 150 K refined to 1.05-A resolution. , 1994, The Journal of biological chemistry.

[23]  P. Wolynes,et al.  The energy landscapes and motions of proteins. , 1991, Science.

[24]  V. Luzzati,et al.  Traitement statistique des erreurs dans la determination des structures cristallines , 1952 .