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Items: 1 to 20 of 121

1.

Predicting protein-protein interfaces as clusters of optimal docking area points.

Arafat Y, Kamruzzaman J, Karmakar GC, Fernandez-Recio J.

Int J Data Min Bioinform. 2009;3(1):55-67.

PMID:
19432376
2.

Structural and functional characterization of binding sites in metallocarboxypeptidases based on Optimal Docking Area analysis.

Fernández D, Vendrell J, Avilés FX, Fernández-Recio J.

Proteins. 2007 Jul 1;68(1):131-44.

PMID:
17407161
3.

Inherent limitations in protein-protein docking procedures.

Kowalsman N, Eisenstein M.

Bioinformatics. 2007 Feb 15;23(4):421-6. Epub 2006 Oct 12.

PMID:
17040920
4.

Improved prediction of protein-protein binding sites using a support vector machines approach.

Bradford JR, Westhead DR.

Bioinformatics. 2005 Apr 15;21(8):1487-94. Epub 2004 Dec 21.

PMID:
15613384
5.

Predicting 3D structures of protein-protein complexes.

Vakser IA, Kundrotas P.

Curr Pharm Biotechnol. 2008 Apr;9(2):57-66. Review.

PMID:
18393862
6.

Optimal docking area: a new method for predicting protein-protein interaction sites.

Fernandez-Recio J, Totrov M, Skorodumov C, Abagyan R.

Proteins. 2005 Jan 1;58(1):134-43.

PMID:
15495260
7.

Characterization and prediction of protein interfaces to infer protein-protein interaction networks.

Keskin O, Tuncbag N, Gursoy A.

Curr Pharm Biotechnol. 2008 Apr;9(2):67-76. Review.

PMID:
18393863
8.

Protein classification using comparative molecular interaction profile analysis system.

Hayashi Y, Kobayashi M, Sakaguchi K, Iwata N, Kobayashi M, Kikuchi Y, Takahashi Y.

J Bioinform Comput Biol. 2004 Sep;2(3):497-510.

PMID:
15359423
9.

Recognition-induced conformational changes in protein-protein docking.

Lensink MF, Méndez R.

Curr Pharm Biotechnol. 2008 Apr;9(2):77-86. Review.

PMID:
18393864
10.

Intramolecular surface contacts contain information about protein-protein interface regions.

de Vries SJ, Bonvin AM.

Bioinformatics. 2006 Sep 1;22(17):2094-8. Epub 2006 Jun 9.

PMID:
16766554
11.

Protein-protein interactions.

Alexov E.

Curr Pharm Biotechnol. 2008 Apr;9(2):55-6. No abstract available.

PMID:
18393861
12.

Statistical prediction of protein chemical interactions based on chemical structure and mass spectrometry data.

Nagamine N, Sakakibara Y.

Bioinformatics. 2007 Aug 1;23(15):2004-12. Epub 2007 May 17.

PMID:
17510168
13.

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
14.

Automatic clustering of docking poses in virtual screening process using self-organizing map.

Bouvier G, Evrard-Todeschi N, Girault JP, Bertho G.

Bioinformatics. 2010 Jan 1;26(1):53-60. doi: 10.1093/bioinformatics/btp623. Epub 2009 Nov 12.

PMID:
19910307
15.

ADP_EM: fast exhaustive multi-resolution docking for high-throughput coverage.

Garzón JI, Kovacs J, Abagyan R, Chacón P.

Bioinformatics. 2007 Feb 15;23(4):427-33. Epub 2006 Dec 6.

PMID:
17150992
16.

Comprehensive inventory of protein complexes in the Protein Data Bank from consistent classification of interfaces.

Bordner AJ, Gorin AA.

BMC Bioinformatics. 2008 May 12;9:234. doi: 10.1186/1471-2105-9-234.

17.

Roll: a new algorithm for the detection of protein pockets and cavities with a rolling probe sphere.

Yu J, Zhou Y, Tanaka I, Yao M.

Bioinformatics. 2010 Jan 1;26(1):46-52. doi: 10.1093/bioinformatics/btp599. Epub 2009 Oct 21.

PMID:
19846440
18.

High-throughput identification of interacting protein-protein binding sites.

Chung JL, Wang W, Bourne PE.

BMC Bioinformatics. 2007 Jun 27;8:223.

19.

A simple and efficient method for predicting protein-protein interaction sites.

Higa RH, Tozzi CL.

Genet Mol Res. 2008 Sep 23;7(3):898-909.

20.

Combination of scoring schemes for protein docking.

Heuser P, Schomburg D.

BMC Bioinformatics. 2007 Aug 1;8:279.

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