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Items: 1 to 20 of 186

1.

A novel shape complementarity scoring function for protein-protein docking.

Chen R, Weng Z.

Proteins. 2003 May 15;51(3):397-408.

PMID:
12696051
2.

ZDOCK: an initial-stage protein-docking algorithm.

Chen R, Li L, Weng Z.

Proteins. 2003 Jul 1;52(1):80-7.

PMID:
12784371
3.

RDOCK: refinement of rigid-body protein docking predictions.

Li L, Chen R, Weng Z.

Proteins. 2003 Nov 15;53(3):693-707.

PMID:
14579360
4.
5.

Examination of shape complementarity in docking of unbound proteins.

Norel R, Petrey D, Wolfson HJ, Nussinov R.

Proteins. 1999 Aug 15;36(3):307-17.

PMID:
10409824
6.

A protein-protein docking benchmark.

Chen R, Mintseris J, Janin J, Weng Z.

Proteins. 2003 Jul 1;52(1):88-91.

PMID:
12784372
7.

M-ZDOCK: a grid-based approach for Cn symmetric multimer docking.

Pierce B, Tong W, Weng Z.

Bioinformatics. 2005 Apr 15;21(8):1472-8. Epub 2004 Dec 21.

PMID:
15613396
8.

A scoring function for docking ligands to low-resolution protein structures.

Bindewald E, Skolnick J.

J Comput Chem. 2005 Mar;26(4):374-83.

PMID:
15651033
9.
10.

ClusPro: an automated docking and discrimination method for the prediction of protein complexes.

Comeau SR, Gatchell DW, Vajda S, Camacho CJ.

Bioinformatics. 2004 Jan 1;20(1):45-50.

PMID:
14693807
11.

Hydrophobic complementarity in protein-protein docking.

Berchanski A, Shapira B, Eisenstein M.

Proteins. 2004 Jul 1;56(1):130-42.

PMID:
15162493
12.

Residue conservation information for generating near-native structures in protein-protein docking.

Duan Y, Reddy BV, Kaznessis YN.

J Bioinform Comput Biol. 2006 Aug;4(4):793-806.

PMID:
17007068
13.

Comparative assessment of scoring functions on a diverse test set.

Cheng T, Li X, Li Y, Liu Z, Wang R.

J Chem Inf Model. 2009 Apr;49(4):1079-93. doi: 10.1021/ci9000053.

PMID:
19358517
15.

LigandFit: a novel method for the shape-directed rapid docking of ligands to protein active sites.

Venkatachalam CM, Jiang X, Oldfield T, Waldman M.

J Mol Graph Model. 2003 Jan;21(4):289-307.

PMID:
12479928
16.

A knowledge-based energy function for protein-ligand, protein-protein, and protein-DNA complexes.

Zhang C, Liu S, Zhu Q, Zhou Y.

J Med Chem. 2005 Apr 7;48(7):2325-35.

PMID:
15801826
17.

Protein docking using surface matching and supervised machine learning.

Bordner AJ, Gorin AA.

Proteins. 2007 Aug 1;68(2):488-502.

PMID:
17444516
18.

FDS: flexible ligand and receptor docking with a continuum solvent model and soft-core energy function.

Taylor RD, Jewsbury PJ, Essex JW.

J Comput Chem. 2003 Oct;24(13):1637-56.

PMID:
12926007
19.

Molecular docking using surface complementarity.

Sobolev V, Wade RC, Vriend G, Edelman M.

Proteins. 1996 May;25(1):120-9.

PMID:
8727324
20.

Complex-type-dependent scoring functions in protein-protein docking.

Li CH, Ma XH, Shen LZ, Chang S, Chen WZ, Wang CX.

Biophys Chem. 2007 Aug;129(1):1-10. Epub 2007 May 8.

PMID:
17540496

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