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Items: 1 to 20 of 183

1.

ModLoop: automated modeling of loops in protein structures.

Fiser A, Sali A.

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

PMID:
14668246
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.

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.

4.

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
5.

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
6.

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.

7.

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.

8.
9.

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
10.

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.

11.

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
12.
13.

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.

14.

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
15.

pKNOT: the protein KNOT web server.

Lai YL, Yen SC, Yu SH, Hwang JK.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W420-4. Epub 2007 May 25.

16.

iMolTalk: an interactive, internet-based protein structure analysis server.

Diemand AV, Scheib H.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W512-6.

17.

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.

18.

STRIDE: a web server for secondary structure assignment from known atomic coordinates of proteins.

Heinig M, Frishman D.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W500-2.

19.

Modeling protein loops using a phi i + 1, psi i dimer database.

Sudarsanam S, DuBose RF, March CJ, Srinivasan S.

Protein Sci. 1995 Jul;4(7):1412-20.

20.

INTREPID: a web server for prediction of functionally important residues by evolutionary analysis.

Sankararaman S, Kolaczkowski B, Sjölander K.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W390-5. doi: 10.1093/nar/gkp339. Epub 2009 May 13.

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