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Literature DB >> 10631975

Rotamer strain as a determinant of protein structural specificity.

G A Lazar¹, E C Johnson, J R Desjarlais, T M Handel.

Abstract

We present direct evidence for a change in protein structural specificity due to hydrophobic core packing. High resolution structural analysis of a designed core variant of ubiquitin reveals that the protein is in slow exchange between two conformations. Examination of side-chain rotamers indicates that this dynamic response and the lower stability of the protein are coupled to greater strain and mobility in the core. The results suggest that manipulating the level of side-chain strain may be one way of fine tuning the stability and specificity of proteins.

Mesh：

Substances：
Ubiquitins

Year: 1999 PMID： 10631975 PMCID： PMC2144231 DOI： 10.1110/ps.8.12.2598

Source DB: PubMed Journal: Protein Sci ISSN： 0961-8368 Impact factor: 6.725

44 in total

1. An engineered allosteric switch in leucine-zipper oligomerization.

Authors: L Gonzalez; J J Plecs; T Alber
Journal: Nat Struct Biol Date: 1996-06

2. IVE (Image Visualization Environment): a software platform for all three-dimensional microscopy applications.

Authors: H Chen; D D Hughes; T A Chan; J W Sedat; D A Agard
Journal: J Struct Biol Date: 1996 Jan-Feb Impact factor: 2.867

3. De novo design of the hydrophobic cores of proteins.

Authors: J R Desjarlais; T M Handel
Journal: Protein Sci Date: 1995-10 Impact factor: 6.725

4. Calculation of protein structures with ambiguous distance restraints. Automated assignment of ambiguous NOE crosspeaks and disulphide connectivities.

Authors: M Nilges
Journal: J Mol Biol Date: 1995-02-03 Impact factor: 5.469

Review 5. Measurement of homo- and heteronuclear J couplings from quantitative J correlation.

Authors: A Bax; G W Vuister; S Grzesiek; F Delaglio; A C Wang; R Tschudin; G Zhu
Journal: Methods Enzymol Date: 1994 Impact factor: 1.600

6. The crystal structure of a mutant protein with altered but improved hydrophobic core packing.

Authors: W A Lim; A Hodel; R T Sauer; F M Richards
Journal: Proc Natl Acad Sci U S A Date: 1994-01-04 Impact factor: 11.205

7. Solution structure and dynamics of ras p21.GDP determined by heteronuclear three- and four-dimensional NMR spectroscopy.

Authors: P J Kraulis; P J Domaille; S L Campbell-Burk; T Van Aken; E D Laue
Journal: Biochemistry Date: 1994-03-29 Impact factor: 3.162

Rotamer strain as a determinant of protein structural specificity.

1. An engineered allosteric switch in leucine-zipper oligomerization.

2. IVE (Image Visualization Environment): a software platform for all three-dimensional microscopy applications.

3. De novo design of the hydrophobic cores of proteins.

4. Calculation of protein structures with ambiguous distance restraints. Automated assignment of ambiguous NOE crosspeaks and disulphide connectivities.

Review 5. Measurement of homo- and heteronuclear J couplings from quantitative J correlation.

6. The crystal structure of a mutant protein with altered but improved hydrophobic core packing.

7. Solution structure and dynamics of ras p21.GDP determined by heteronuclear three- and four-dimensional NMR spectroscopy.

8. 1H, 13C and 15N chemical shift referencing in biomolecular NMR.

9. Thermodynamic parameters from hydrogen exchange measurements.

10. Internal dynamics of human ubiquitin revealed by 13C-relaxation studies of randomly fractionally labeled protein.

1. Prediction of amino acid sequence from structure.

2. Characterization of protein secondary structure from NMR chemical shifts.

3. Solution structure of lysine-free (K0) ubiquitin.

4. Conformational stabilization of ubiquitin yields potent and selective inhibitors of USP7.