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Results: 1 to 20 of 151

1.

ModLoop: automated modeling of loops in protein structures.

Fiser A, Sali A.

Bioinformatics. 2003 Dec 12;19(18):2500-1.

PMID:
14668246
[PubMed - indexed for MEDLINE]
Free Article
2.

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

Pieper U, Eswar N, Braberg H, Madhusudhan MS, Davis FP, Stuart AC, Mirkovic N, Rossi A, Marti-Renom MA, Fiser A, Webb B, Greenblatt D, Huang CC, Ferrin TE, Sali A.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D217-22.

PMID:
14681398
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Tools for comparative protein structure modeling and analysis.

Eswar N, John B, Mirkovic N, Fiser A, Ilyin VA, Pieper U, Stuart AC, Marti-Renom MA, Madhusudhan MS, Yerkovich B, Sali A.

Nucleic Acids Res. 2003 Jul 1;31(13):3375-80.

PMID:
12824331
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

SALIGN: a web server for alignment of multiple protein sequences and structures.

Braberg H, Webb BM, Tjioe E, Pieper U, Sali A, Madhusudhan MS.

Bioinformatics. 2012 Aug 1;28(15):2072-3. doi: 10.1093/bioinformatics/bts302. Epub 2012 May 21.

PMID:
22618536
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Parmodel: a web server for automated comparative modeling of proteins.

Uchôa HB, Jorge GE, Freitas Da Silveira NJ, Camera JC Jr, Canduri F, De Azevedo WF Jr.

Biochem Biophys Res Commun. 2004 Dec 24;325(4):1481-6.

PMID:
15555595
[PubMed - indexed for MEDLINE]
6.

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.

PMID:
21097780
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

P-cats: prediction of catalytic residues in proteins from their tertiary structures.

Kinoshita K, Ota M.

Bioinformatics. 2005 Sep 1;21(17):3570-1. Epub 2005 Jun 30.

PMID:
15994193
[PubMed - indexed for MEDLINE]
Free Article
8.

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.

PMID:
19420059
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

SuperLooper--a prediction server for the modeling of loops in globular and membrane proteins.

Hildebrand PW, Goede A, Bauer RA, Gruening B, Ismer J, Michalsky E, Preissner R.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W571-4. doi: 10.1093/nar/gkp338. Epub 2009 May 8.

PMID:
19429894
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Browsing the SLoop database of structurally classified loops connecting elements of protein secondary structure.

Burke DF, Deane CM, Blundell TL.

Bioinformatics. 2000 Jun;16(6):513-9.

PMID:
10980148
[PubMed - indexed for MEDLINE]
Free Article
11.

MODBASE: a database of annotated comparative protein structure models and associated resources.

Pieper U, Eswar N, Davis FP, Braberg H, Madhusudhan MS, Rossi A, Marti-Renom M, Karchin R, Webb BM, Eramian D, Shen MY, Kelly L, Melo F, Sali A.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D291-5.

PMID:
16381869
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

PIGS: automatic prediction of antibody structures.

Marcatili P, Rosi A, Tramontano A.

Bioinformatics. 2008 Sep 1;24(17):1953-4. doi: 10.1093/bioinformatics/btn341. Epub 2008 Jul 19.

PMID:
18641403
[PubMed - indexed for MEDLINE]
Free Article
13.

SWISS-MODEL: An automated protein homology-modeling server.

Schwede T, Kopp J, Guex N, Peitsch MC.

Nucleic Acids Res. 2003 Jul 1;31(13):3381-5.

PMID:
12824332
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

MAGOS: multiple alignment and modelling server.

Garnier N, Friedrich A, Bolze R, Bettler E, Moulinier L, Geourjon C, Thompson JD, Deléage G, Poch O.

Bioinformatics. 2006 Sep 1;22(17):2164-5. Epub 2006 Jul 4.

PMID:
16820425
[PubMed - indexed for MEDLINE]
Free Article
15.

The FALC-Loop web server for protein loop modeling.

Ko J, Lee D, Park H, Coutsias EA, Lee J, Seok C.

Nucleic Acids Res. 2011 Jul;39(Web Server issue):W210-4. doi: 10.1093/nar/gkr352. Epub 2011 May 16.

PMID:
21576220
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

GalaxyWEB server for protein structure prediction and refinement.

Ko J, Park H, Heo L, Seok C.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W294-7. doi: 10.1093/nar/gks493. Epub 2012 May 30.

PMID:
22649060
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Analysis, clustering and prediction of the conformation of short and medium size loops connecting regular secondary structures.

Rufino SD, Donate LE, Canard L, Blundell TL.

Pac Symp Biocomput. 1996:570-89.

PMID:
9390259
[PubMed - indexed for MEDLINE]
18.

COREX/BEST server: a web browser-based program that calculates regional stability variations within protein structures.

Vertrees J, Barritt P, Whitten S, Hilser VJ.

Bioinformatics. 2005 Aug 1;21(15):3318-9. Epub 2005 May 27.

PMID:
15923205
[PubMed - indexed for MEDLINE]
Free Article
19.

PepBuild: a web server for building structure data of peptides/proteins.

Singh B.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W559-61.

PMID:
15215449
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

PiSQRD: a web server for decomposing proteins into quasi-rigid dynamical domains.

Aleksiev T, Potestio R, Pontiggia F, Cozzini S, Micheletti C.

Bioinformatics. 2009 Oct 15;25(20):2743-4. doi: 10.1093/bioinformatics/btp512. Epub 2009 Aug 20.

PMID:
19696046
[PubMed - indexed for MEDLINE]
Free Article
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