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Items: 1 to 20 of 240

1.

Modeling side-chain conformation for homologous proteins using an energy-based rotamer search.

Wilson C, Gregoret LM, Agard DA.

J Mol Biol. 1993 Feb 20;229(4):996-1006.

PMID:
8445659
2.

Prediction of protein side-chain rotamers from a backbone-dependent rotamer library: a new homology modeling tool.

Bower MJ, Cohen FE, Dunbrack RL Jr.

J Mol Biol. 1997 Apr 18;267(5):1268-82.

PMID:
9150411
3.

Incorporating knowledge-based biases into an energy-based side-chain modeling method: application to comparative modeling of protein structure.

Mendes J, Nagarajaram HA, Soares CM, Blundell TL, Carrondo MA.

Biopolymers. 2001 Aug;59(2):72-86.

PMID:
11373721
5.
6.
8.

Modeling structurally variable regions in homologous proteins with rosetta.

Rohl CA, Strauss CE, Chivian D, Baker D.

Proteins. 2004 May 15;55(3):656-77.

PMID:
15103629
9.

A method to configure protein side-chains from the main-chain trace in homology modelling.

Eisenmenger F, Argos P, Abagyan R.

J Mol Biol. 1993 Jun 5;231(3):849-60.

PMID:
8515455
10.

Rapid refinement of protein interfaces incorporating solvation: application to the docking problem.

Jackson RM, Gabb HA, Sternberg MJ.

J Mol Biol. 1998 Feb 13;276(1):265-85.

PMID:
9514726
12.

Side-chain modeling with an optimized scoring function.

Liang S, Grishin NV.

Protein Sci. 2002 Feb;11(2):322-31.

13.

Backbone-dependent rotamer library for proteins. Application to side-chain prediction.

Dunbrack RL Jr, Karplus M.

J Mol Biol. 1993 Mar 20;230(2):543-74.

PMID:
8464064
14.

Assessment of comparative modeling in CASP2.

Martin AC, MacArthur MW, Thornton JM.

Proteins. 1997;Suppl 1:14-28.

PMID:
9485491
16.

The energetics of off-rotamer protein side-chain conformations.

Petrella RJ, Karplus M.

J Mol Biol. 2001 Oct 5;312(5):1161-75.

PMID:
11580256
18.

SPINFAST: using structure alignment profiles to enhance the accuracy and assess the reliability of protein side-chain modeling.

Poleksic A, Danzer JF, Palmer BA, Olafson BD, Debe DA.

Proteins. 2006 Dec 1;65(4):953-8.

PMID:
17006949
19.
20.

Computational method for the design of enzymes with altered substrate specificity.

Wilson C, Mace JE, Agard DA.

J Mol Biol. 1991 Jul 20;220(2):495-506.

PMID:
1856870

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