Format
Sort by

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 118

1.

Flexible structure alignment by chaining aligned fragment pairs allowing twists.

Ye Y, Godzik A.

Bioinformatics. 2003 Oct;19 Suppl 2:ii246-55.

2.

TOPS++FATCAT: fast flexible structural alignment using constraints derived from TOPS+ Strings Model.

Veeramalai M, Ye Y, Godzik A.

BMC Bioinformatics. 2008 Aug 31;9:358. doi: 10.1186/1471-2105-9-358.

3.

Matt: local flexibility aids protein multiple structure alignment.

Menke M, Berger B, Cowen L.

PLoS Comput Biol. 2008 Jan;4(1):e10. doi: 10.1371/journal.pcbi.0040010.

4.

Multiple flexible structure alignment using partial order graphs.

Ye Y, Godzik A.

Bioinformatics. 2005 May 15;21(10):2362-9. Epub 2005 Mar 3.

5.

Database searching by flexible protein structure alignment.

Ye Y, Godzik A.

Protein Sci. 2004 Jul;13(7):1841-50.

6.

Flexible protein alignment and hinge detection.

Shatsky M, Nussinov R, Wolfson HJ.

Proteins. 2002 Aug 1;48(2):242-56.

PMID:
12112693
7.

Alignment of protein structures in the presence of domain motions.

Mosca R, Brannetti B, Schneider TR.

BMC Bioinformatics. 2008 Aug 27;9:352. doi: 10.1186/1471-2105-9-352.

8.

Vorolign--fast structural alignment using Voronoi contacts.

Birzele F, Gewehr JE, Csaba G, Zimmer R.

Bioinformatics. 2007 Jan 15;23(2):e205-11.

9.

MatAlign: precise protein structure comparison by matrix alignment.

Aung Z, Tan KL.

J Bioinform Comput Biol. 2006 Dec;4(6):1197-216.

PMID:
17245810
10.

Iterative non-sequential protein structural alignment.

Salem S, Zaki MJ.

Comput Syst Bioinformatics Conf. 2008;7:183-94.

11.

Critical assessment of structure-based sequence alignment methods at distant relationships.

Kalaimathy S, Sowdhamini R, Kanagarajadurai K.

Brief Bioinform. 2011 Mar;12(2):163-75. doi: 10.1093/bib/bbq025.

12.

Development and validation of a consistency based multiple structure alignment algorithm.

Ebert J, Brutlag D.

Bioinformatics. 2006 May 1;22(9):1080-7. Epub 2006 Feb 10.

13.

Comparative protein structure modeling by combining multiple templates and optimizing sequence-to-structure alignments.

Fernandez-Fuentes N, Rai BK, Madrid-Aliste CJ, Fajardo JE, Fiser A.

Bioinformatics. 2007 Oct 1;23(19):2558-65. Epub 2007 Sep 6.

14.

Variable gap penalty for protein sequence-structure alignment.

Madhusudhan MS, Marti-Renom MA, Sanchez R, Sali A.

Protein Eng Des Sel. 2006 Mar;19(3):129-33. Epub 2006 Jan 19.

15.

Incremental window-based protein sequence alignment algorithms.

Rangwala H, Karypis G.

Bioinformatics. 2007 Jan 15;23(2):e17-23.

16.

Accuracy of structure-based sequence alignment of automatic methods.

Kim C, Lee B.

BMC Bioinformatics. 2007 Sep 20;8:355.

17.

Comparative analysis of protein structure alignments.

Mayr G, Domingues FS, Lackner P.

BMC Struct Biol. 2007 Jul 26;7:50.

18.

Protein structure mining using a structural alphabet.

Tyagi M, de Brevern AG, Srinivasan N, Offmann B.

Proteins. 2008 May 1;71(2):920-37.

PMID:
18004784
19.

A segment alignment approach to protein comparison.

Ye Y, Jaroszewski L, Li W, Godzik A.

Bioinformatics. 2003 Apr 12;19(6):742-9.

20.
Items per page

Supplemental Content

Write to the Help Desk