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Items: 1 to 20 of 111

1.

IBIS (Inferred Biomolecular Interaction Server) reports, predicts and integrates multiple types of conserved interactions for proteins.

Shoemaker BA, Zhang D, Tyagi M, Thangudu RR, Fong JH, Marchler-Bauer A, Bryant SH, Madej T, Panchenko AR.

Nucleic Acids Res. 2012 Jan;40(Database issue):D834-40. doi: 10.1093/nar/gkr997. Epub 2011 Nov 18.

2.

Inferred Biomolecular Interaction Server--a web server to analyze and predict protein interacting partners and binding sites.

Shoemaker BA, Zhang D, Thangudu RR, Tyagi M, Fong JH, Marchler-Bauer A, Bryant SH, Madej T, Panchenko AR.

Nucleic Acids Res. 2010 Jan;38(Database issue):D518-24. doi: 10.1093/nar/gkp842. Epub 2009 Oct 20.

3.

SCOWLP: a web-based database for detailed characterization and visualization of protein interfaces.

Teyra J, Doms A, Schroeder M, Pisabarro MT.

BMC Bioinformatics. 2006 Mar 2;7:104.

4.

3D-partner: a web server to infer interacting partners and binding models.

Chen YC, Lo YS, Hsu WC, Yang JM.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W561-7. Epub 2007 May 21.

5.

PSIbase: a database of Protein Structural Interactome map (PSIMAP).

Gong S, Yoon G, Jang I, Bolser D, Dafas P, Schroeder M, Choi H, Cho Y, Han K, Lee S, Choi H, Lappe M, Holm L, Kim S, Oh D, Bhak J.

Bioinformatics. 2005 May 15;21(10):2541-3. Epub 2005 Mar 3.

PMID:
15749693
6.

Knowledge-based annotation of small molecule binding sites in proteins.

Thangudu RR, Tyagi M, Shoemaker BA, Bryant SH, Panchenko AR, Madej T.

BMC Bioinformatics. 2010 Jul 1;11:365. doi: 10.1186/1471-2105-11-365.

7.

Homology inference of protein-protein interactions via conserved binding sites.

Tyagi M, Thangudu RR, Zhang D, Bryant SH, Madej T, Panchenko AR.

PLoS One. 2012;7(1):e28896. doi: 10.1371/journal.pone.0028896. Epub 2012 Jan 31.

8.
9.

DAPID: a 3D-domain annotated protein-protein interaction database.

Chen YC, Chen HC, Yang JM.

Genome Inform. 2006;17(2):206-15.

PMID:
17503393
10.

DOMMINO: a database of macromolecular interactions.

Kuang X, Han JG, Zhao N, Pang B, Shyu CR, Korkin D.

Nucleic Acids Res. 2012 Jan;40(Database issue):D501-6. doi: 10.1093/nar/gkr1128. Epub 2011 Dec 1.

11.

BLAST: improvements for better sequence analysis.

Ye J, McGinnis S, Madden TL.

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W6-9.

12.

MannDB - a microbial database of automated protein sequence analyses and evidence integration for protein characterization.

Zhou CL, Lam MW, Smith JR, Zemla AT, Dyer MD, Kuczmarski TA, Vitalis EA, Slezak TR.

BMC Bioinformatics. 2006 Oct 17;7:459.

13.

The integration and annotation of the human interactome in the UniHI Database.

Chaurasia G, Futschik M.

Methods Mol Biol. 2012;812:175-88. doi: 10.1007/978-1-61779-455-1_10.

PMID:
22218860
14.

PINT: Protein-protein Interactions Thermodynamic Database.

Kumar MD, Gromiha MM.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D195-8.

15.

ANCHOR: a web server and database for analysis of protein-protein interaction binding pockets for drug discovery.

Meireles LM, Dömling AS, Camacho CJ.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W407-11. doi: 10.1093/nar/gkq502. Epub 2010 Jun 4.

16.

ModBase, a database of annotated comparative protein structure models, and associated resources.

Pieper U, Webb BM, Barkan DT, Schneidman-Duhovny D, Schlessinger A, Braberg H, Yang Z, Meng EC, Pettersen EF, Huang CC, Datta RS, Sampathkumar P, Madhusudhan MS, Sjölander K, Ferrin TE, Burley SK, Sali A.

Nucleic Acids Res. 2011 Jan;39(Database issue):D465-74. doi: 10.1093/nar/gkq1091. Epub 2010 Nov 19.

17.

HOMCOS: a server to predict interacting protein pairs and interacting sites by homology modeling of complex structures.

Fukuhara N, Kawabata T.

Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W185-9. doi: 10.1093/nar/gkn218. Epub 2008 Apr 28.

18.

ProtorP: a protein-protein interaction analysis server.

Reynolds C, Damerell D, Jones S.

Bioinformatics. 2009 Feb 1;25(3):413-4. doi: 10.1093/bioinformatics/btn584. Epub 2008 Nov 11.

PMID:
19001476
19.

PCFamily: a web server for searching homologous protein complexes.

Lo YS, Lin CY, Yang JM.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W516-22. doi: 10.1093/nar/gkq464. Epub 2010 May 28.

20.

Protinfo PPC: a web server for atomic level prediction of protein complexes.

Kittichotirat W, Guerquin M, Bumgarner RE, Samudrala R.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W519-25. doi: 10.1093/nar/gkp306. Epub 2009 May 6.

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