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Items: 1 to 20 of 195

1.

MMDB: annotating protein sequences with Entrez's 3D-structure database.

Wang Y, Addess KJ, Chen J, Geer LY, He J, He S, Lu S, Madej T, Marchler-Bauer A, Thiessen PA, Zhang N, Bryant SH.

Nucleic Acids Res. 2007 Jan;35(Database issue):D298-300. Epub 2006 Nov 29.

2.

MMDB: Entrez's 3D-structure database.

Chen J, Anderson JB, DeWeese-Scott C, Fedorova ND, Geer LY, He S, Hurwitz DI, Jackson JD, Jacobs AR, Lanczycki CJ, Liebert CA, Liu C, Madej T, Marchler-Bauer A, Marchler GH, Mazumder R, Nikolskaya AN, Rao BS, Panchenko AR, Shoemaker BA, Simonyan V, Song JS, Thiessen PA, Vasudevan S, Wang Y, Yamashita RA, Yin JJ, Bryant SH.

Nucleic Acids Res. 2003 Jan 1;31(1):474-7.

3.

MMDB: Entrez's 3D-structure database.

Wang Y, Anderson JB, Chen J, Geer LY, He S, Hurwitz DI, Liebert CA, Madej T, Marchler GH, Marchler-Bauer A, Panchenko AR, Shoemaker BA, Song JS, Thiessen PA, Yamashita RA, Bryant SH.

Nucleic Acids Res. 2002 Jan 1;30(1):249-52.

4.

MMDB: 3D structure data in Entrez.

Wang Y, Addess KJ, Geer L, Madej T, Marchler-Bauer A, Zimmerman D, Bryant SH.

Nucleic Acids Res. 2000 Jan 1;28(1):243-5.

5.

MMDB: Entrez's 3D structure database.

Marchler-Bauer A, Addess KJ, Chappey C, Geer L, Madej T, Matsuo Y, Wang Y, Bryant SH.

Nucleic Acids Res. 1999 Jan 1;27(1):240-3.

6.

CDD: a curated Entrez database of conserved domain alignments.

Marchler-Bauer A, Anderson JB, DeWeese-Scott C, Fedorova ND, Geer LY, He S, Hurwitz DI, Jackson JD, Jacobs AR, Lanczycki CJ, Liebert CA, Liu C, Madej T, Marchler GH, Mazumder R, Nikolskaya AN, Panchenko AR, Rao BS, Shoemaker BA, Simonyan V, Song JS, Thiessen PA, Vasudevan S, Wang Y, Yamashita RA, Yin JJ, Bryant SH.

Nucleic Acids Res. 2003 Jan 1;31(1):383-7.

7.

MMDB: 3D structures and macromolecular interactions.

Madej T, Addess KJ, Fong JH, Geer LY, Geer RC, Lanczycki CJ, Liu C, Lu S, Marchler-Bauer A, Panchenko AR, Chen J, Thiessen PA, Wang Y, Zhang D, Bryant SH.

Nucleic Acids Res. 2012 Jan;40(Database issue):D461-4. doi: 10.1093/nar/gkr1162. Epub 2011 Dec 1.

8.

CDD: a Conserved Domain Database for protein classification.

Marchler-Bauer A, Anderson JB, Cherukuri PF, DeWeese-Scott C, Geer LY, Gwadz M, He S, Hurwitz DI, Jackson JD, Ke Z, Lanczycki CJ, Liebert CA, Liu C, Lu F, Marchler GH, Mullokandov M, Shoemaker BA, Simonyan V, Song JS, Thiessen PA, Yamashita RA, Yin JJ, Zhang D, Bryant SH.

Nucleic Acids Res. 2005 Jan 1;33(Database issue):D192-6.

9.

CDD: a conserved domain database for interactive domain family analysis.

Marchler-Bauer A, Anderson JB, Derbyshire MK, DeWeese-Scott C, Gonzales NR, Gwadz M, Hao L, He S, Hurwitz DI, Jackson JD, Ke Z, Krylov D, Lanczycki CJ, Liebert CA, Liu C, Lu F, Lu S, Marchler GH, Mullokandov M, Song JS, Thanki N, Yamashita RA, Yin JJ, Zhang D, Bryant SH.

Nucleic Acids Res. 2007 Jan;35(Database issue):D237-40. Epub 2006 Nov 29.

10.

CDD: a database of conserved domain alignments with links to domain three-dimensional structure.

Marchler-Bauer A, Panchenko AR, Shoemaker BA, Thiessen PA, Geer LY, Bryant SH.

Nucleic Acids Res. 2002 Jan 1;30(1):281-3.

11.

MMDB and VAST+: tracking structural similarities between macromolecular complexes.

Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH.

Nucleic Acids Res. 2014 Jan;42(Database issue):D297-303. doi: 10.1093/nar/gkt1208. Epub 2013 Dec 6.

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.

CD-Search: protein domain annotations on the fly.

Marchler-Bauer A, Bryant SH.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W327-31.

14.

Tools for integrated sequence-structure analysis with UCSF Chimera.

Meng EC, Pettersen EF, Couch GS, Huang CC, Ferrin TE.

BMC Bioinformatics. 2006 Jul 12;7:339.

15.

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.

16.
17.

The ProDom database of protein domain families: more emphasis on 3D.

Bru C, Courcelle E, Carrère S, Beausse Y, Dalmar S, Kahn D.

Nucleic Acids Res. 2005 Jan 1;33(Database issue):D212-5.

18.

CDD: conserved domains and protein three-dimensional structure.

Marchler-Bauer A, Zheng C, Chitsaz F, Derbyshire MK, Geer LY, Geer RC, Gonzales NR, Gwadz M, Hurwitz DI, Lanczycki CJ, Lu F, Lu S, Marchler GH, Song JS, Thanki N, Yamashita RA, Zhang D, Bryant SH.

Nucleic Acids Res. 2013 Jan;41(Database issue):D348-52. doi: 10.1093/nar/gks1243. Epub 2012 Nov 28.

19.

Links from genome proteins to known 3-D structures.

Wang Y, Bryant S, Tatusov R, Tatusova T.

Genome Res. 2000 Oct;10(10):1643-7.

20.

Expresso: automatic incorporation of structural information in multiple sequence alignments using 3D-Coffee.

Armougom F, Moretti S, Poirot O, Audic S, Dumas P, Schaeli B, Keduas V, Notredame C.

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W604-8.

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