Format
Sort by
Items per page

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 62

1.

Characterization and prediction of residues determining protein functional specificity.

Capra JA, Singh M.

Bioinformatics. 2008 Jul 1;24(13):1473-80. doi: 10.1093/bioinformatics/btn214. Epub 2008 May 1.

2.

Reassessing a sparse energetic network within a single protein domain.

Chi CN, Elfström L, Shi Y, Snäll T, Engström A, Jemth P.

Proc Natl Acad Sci U S A. 2008 Mar 25;105(12):4679-84. doi: 10.1073/pnas.0711732105. Epub 2008 Mar 13.

3.

Ligand-induced conformational changes and conformational dynamics in the solution structure of the lactose repressor protein.

Taraban M, Zhan H, Whitten AE, Langley DB, Matthews KS, Swint-Kruse L, Trewhella J.

J Mol Biol. 2008 Feb 15;376(2):466-81. doi: 10.1016/j.jmb.2007.11.067. Epub 2007 Nov 28.

4.

The origin of protein interactions and allostery in colocalization.

Kuriyan J, Eisenberg D.

Nature. 2007 Dec 13;450(7172):983-90. Review.

PMID:
18075577
5.

Remediation of the protein data bank archive.

Henrick K, Feng Z, Bluhm WF, Dimitropoulos D, Doreleijers JF, Dutta S, Flippen-Anderson JL, Ionides J, Kamada C, Krissinel E, Lawson CL, Markley JL, Nakamura H, Newman R, Shimizu Y, Swaminathan J, Velankar S, Ory J, Ulrich EL, Vranken W, Westbrook J, Yamashita R, Yang H, Young J, Yousufuddin M, Berman HM.

Nucleic Acids Res. 2008 Jan;36(Database issue):D426-33. Epub 2007 Dec 11.

6.

Mutual information without the influence of phylogeny or entropy dramatically improves residue contact prediction.

Dunn SD, Wahl LM, Gloor GB.

Bioinformatics. 2008 Feb 1;24(3):333-40. Epub 2007 Dec 5.

PMID:
18057019
7.

Detecting coevolution in and among protein domains.

Yeang CH, Haussler D.

PLoS Comput Biol. 2007 Nov;3(11):e211. Epub 2007 Sep 18.

8.
9.

Contact rearrangements form coupled networks from local motions in allosteric proteins.

Daily MD, Upadhyaya TJ, Gray JJ.

Proteins. 2008 Apr;71(1):455-66.

10.

Functional specificity lies within the properties and evolutionary changes of amino acids.

Chakrabarti S, Bryant SH, Panchenko AR.

J Mol Biol. 2007 Oct 26;373(3):801-10. Epub 2007 Aug 22.

11.

Flexible mapping of homology onto structure with homolmapper.

Rockwell NC, Lagarias JC.

BMC Bioinformatics. 2007 Apr 11;8:123.

12.

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.

13.

Sequence comparison by sequence harmony identifies subtype-specific functional sites.

Pirovano W, Feenstra KA, Heringa J.

Nucleic Acids Res. 2006;34(22):6540-8. Epub 2006 Nov 27.

14.
15.
16.
17.

Prediction of functional specificity determinants from protein sequences using log-likelihood ratios.

Pei J, Cai W, Kinch LN, Grishin NV.

Bioinformatics. 2006 Jan 15;22(2):164-71. Epub 2005 Nov 8.

PMID:
16278237
18.

Using information theory to search for co-evolving residues in proteins.

Martin LC, Gloor GB, Dunn SD, Wahl LM.

Bioinformatics. 2005 Nov 15;21(22):4116-24. Epub 2005 Sep 13.

PMID:
16159918
19.

A model-based approach for detecting coevolving positions in a molecule.

Dutheil J, Pupko T, Jean-Marie A, Galtier N.

Mol Biol Evol. 2005 Sep;22(9):1919-28. Epub 2005 Jun 8.

PMID:
15944445
20.

Mutual information in protein multiple sequence alignments reveals two classes of coevolving positions.

Gloor GB, Martin LC, Wahl LM, Dunn SD.

Biochemistry. 2005 May 17;44(19):7156-65.

PMID:
15882054

Supplemental Content

Support Center