Experimental verification of the 'stability profile of mutant protein' (SPMP) data using mutant human lysozymes.Takano, K., Ota, M., Ogasahara, K., Yamagata, Y., Nishikawa, K., Yutani, K.
(1999) Protein Eng 12: 663-672
- PubMed: 10469827
- DOI: 10.1093/protein/12.8.663
- Structures With Same Primary Citation
- PubMed Abstract:
- Contribution of Hydrogen Bonds to the Conformational Stability of Human Lysozyme: Calorimetry and X-Ray Analysis of Six Tyrosine->Phenylalanine Mutants
Yamagata, Y., Kubota, M., Sumikawa, Y., Funahashi, J., Takano, K., Fujii, S., Yutani, K.
(1998) Biochemistry 37: 9355
- Contribution of Hydrophobic Effect to the Stability of Human Lysozyme: Calorimetric Studies and X-Ray Structural Analyses of the Nine Valine to Alanine Mutants
Takano, K., Yamagata, Y., Fujii, S., Yutani, K.
(1997) Biochemistry 36: 688
- Contribution of Water Molecules in the Interior of a Protein to the Conformational Stability
Takano, K., Funahashi, J., Yamagata, Y., Fujii, S., Yutani, K.
(1997) J Mol Biol 274: 132
- A General Rule for the Relationship between Hydrophobic Effect and Conformational Stability of a Protein: Stability and Structure of a Series of Hydrophobic Mutants of Human Lysozyme
Takano, K., Yamagata, Y., Yutani, K.
(1997) J Mol Biol 280: 749
- Contribution of Hydrophobic Residues to the Stability of Human Lysozyme: Calorimetric Studies and X-Ray Structural Analysis of the Five Isoleucine to Valine Mutants
Takano, K., Ogasawaha, K., Kaneda, H., Yamagata, Y., Fujii, S., Kanaya, E., Kikuchi, M., Oobatake, M., Yutani, K.
(1995) J Mol Biol 254: 62
The stability profile of mutant protein (SPMP) (Ota,M., Kanaya,S. and Nishikawa,K., 1995, J. Mol. Biol., 248, 733-738) estimates the changes in conformational stability due to single amino acid substitutions using a pseudo-energy potential developed ...
The stability profile of mutant protein (SPMP) (Ota,M., Kanaya,S. and Nishikawa,K., 1995, J. Mol. Biol., 248, 733-738) estimates the changes in conformational stability due to single amino acid substitutions using a pseudo-energy potential developed for evaluating structure-sequence compatibility in the structure prediction method, the 3D-1D compatibility evaluation. Nine mutant human lysozymes expected to significantly increase in stability from SPMP were constructed, in order to experimentally verify the reliability of SPMP. The thermodynamic parameters for denaturation and crystal structures of these mutant proteins were determined. One mutant protein was stabilized as expected, compared with the wild-type protein. However, the others were not stabilized even though the structural changes were subtle, indicating that SPMP overestimates the increase in stability or underestimates negative effects due to substitution. The stability changes in the other mutant human lysozymes previously reported were also analyzed by SPMP. The correlation of the stability changes between the experiment and prediction depended on the types of substitution: there were some correlations for proline mutants and cavity-creating mutants, but no correlation for mutants related to side-chain hydrogen bonds. The present results may indicate some additional factors that should be considered in the calculation of SPMP, suggesting that SPMP can be refined further.
Institute for Protein Research, Osaka University, Yamadaoka, Suita, Osaka 565-0871, Japan.