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Similar articles for PubMed (Select 14627733)

1.

Boltzmann-type distribution of side-chain conformation in proteins.

Butterfoss GL, Hermans J.

Protein Sci. 2003 Dec;12(12):2719-31.

2.

Protein imperfections: separating intrinsic from extrinsic variation of torsion angles.

Butterfoss GL, Richardson JS, Hermans J.

Acta Crystallogr D Biol Crystallogr. 2005 Jan;61(Pt 1):88-98. Epub 2004 Dec 17.

PMID:
15608380
3.

Rotamers: to be or not to be? An analysis of amino acid side-chain conformations in globular proteins.

Schrauber H, Eisenhaber F, Argos P.

J Mol Biol. 1993 Mar 20;230(2):592-612.

PMID:
8464066
4.

Intrinsic energy landscapes of amino acid side-chains.

Zhu X, Lopes PE, Shim J, MacKerell AD Jr.

J Chem Inf Model. 2012 Jun 25;52(6):1559-72. doi: 10.1021/ci300079j. Epub 2012 May 24. Erratum in: J Chem Inf Model. 2012 Aug 27;52(8):2317-8.

5.

Using quantum mechanics to improve estimates of amino acid side chain rotamer energies.

Renfrew PD, Butterfoss GL, Kuhlman B.

Proteins. 2008 Jun;71(4):1637-46.

6.

Statistical and energetic analysis of side-chain conformations in oligopeptides.

Benedetti E, Morelli G, Némethy G, Scheraga HA.

Int J Pept Protein Res. 1983 Jul;22(1):1-15.

PMID:
6885244
7.

Visualizing and quantifying molecular goodness-of-fit: small-probe contact dots with explicit hydrogen atoms.

Word JM, Lovell SC, LaBean TH, Taylor HC, Zalis ME, Presley BK, Richardson JS, Richardson DC.

J Mol Biol. 1999 Jan 29;285(4):1711-33.

PMID:
9917407
8.

Cyclic retro-inverso dipeptides with two aromatic side chains. II. Conformational analysis.

Yamazaki T, Nunami K, Goodman M.

Biopolymers. 1991 Nov;31(13):1513-28.

PMID:
1814501
9.

Analysis of the relationship between side-chain conformation and secondary structure in globular proteins.

McGregor MJ, Islam SA, Sternberg MJ.

J Mol Biol. 1987 Nov 20;198(2):295-310.

PMID:
3430610
10.

Fine grained sampling of residue characteristics using molecular dynamics simulation.

Joo H, Qu X, Swanson R, McCallum CM, Tsai J.

Comput Biol Chem. 2010 Jun;34(3):172-83. doi: 10.1016/j.compbiolchem.2010.06.002. Epub 2010 Jun 19.

11.
12.

The occurrence of C--H...O hydrogen bonds in alpha-helices and helix termini in globular proteins.

Manikandan K, Ramakumar S.

Proteins. 2004 Sep 1;56(4):768-81.

PMID:
15281129
13.

The properties of bio-energy transport and influence of structure nonuniformity and temperature of systems on energy transport along polypeptide chains.

Pang XF.

Prog Biophys Mol Biol. 2012 Jan;108(1-2):1-46. doi: 10.1016/j.pbiomolbio.2011.09.005. Epub 2011 Sep 17. Review.

PMID:
21951575
14.
15.

Optimization of van der Waals energy for protein side-chain placement and design.

Fahmy A, Wagner G.

Biophys J. 2011 Oct 5;101(7):1690-8. doi: 10.1016/j.bpj.2011.07.052.

16.
17.
18.

Conformational studies of heterochiral peptides with diastereoisomeric residues: crystal and molecular structures of linear dipeptides derived from leucine, isoleucine, and allo-isoleucine.

Di Blasio B, Saviano M, Del Duca V, De Simone G, Rossi F, Pedone C, Benedetti E, Lorenzi GP.

Biopolymers. 1995 Oct;36(4):401-8.

PMID:
7578937
19.

Determination of alpha-helix propensity within the context of a folded protein. Sites 44 and 131 in bacteriophage T4 lysozyme.

Blaber M, Zhang XJ, Lindstrom JD, Pepiot SD, Baase WA, Matthews BW.

J Mol Biol. 1994 Jan 14;235(2):600-24.

PMID:
8289284
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