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Items: 1 to 20 of 58

1.

Functional states of homooligomers: insights from the evolution of glycosyltransferases.

Hashimoto K, Madej T, Bryant SH, Panchenko AR.

J Mol Biol. 2010 May 28;399(1):196-206. doi: 10.1016/j.jmb.2010.03.059. Epub 2010 Apr 8.

2.

Comparative evolutionary analysis of protein complexes in E. coli and yeast.

Reid AJ, Ranea JA, Orengo CA.

BMC Genomics. 2010 Feb 1;11:79. doi: 10.1186/1471-2164-11-79.

3.

Amino acid substitutions at protein-protein interfaces that modulate the oligomeric state.

Nishi H, Ota M.

Proteins. 2010 May 1;78(6):1563-74. doi: 10.1002/prot.22673.

PMID:
20112251
4.

Evolution of protein binding modes in homooligomers.

Dayhoff JE, Shoemaker BA, Bryant SH, Panchenko AR.

J Mol Biol. 2010 Jan 29;395(4):860-70. doi: 10.1016/j.jmb.2009.10.052. Epub 2009 Oct 30.

5.

Inferred Biomolecular Interaction Server--a web server to analyze and predict protein interacting partners and binding sites.

Shoemaker BA, Zhang D, Thangudu RR, Tyagi M, Fong JH, Marchler-Bauer A, Bryant SH, Madej T, Panchenko AR.

Nucleic Acids Res. 2010 Jan;38(Database issue):D518-24. doi: 10.1093/nar/gkp842. Epub 2009 Oct 20.

6.

Structural evolution of p53, p63, and p73: implication for heterotetramer formation.

Joerger AC, Rajagopalan S, Natan E, Veprintsev DB, Robinson CV, Fersht AR.

Proc Natl Acad Sci U S A. 2009 Oct 20;106(42):17705-10. doi: 10.1073/pnas.0905867106. Epub 2009 Oct 7.

8.

Predicting weakly stable regions, oligomerization state, and protein-protein interfaces in transmembrane domains of outer membrane proteins.

Naveed H, Jackups R Jr, Liang J.

Proc Natl Acad Sci U S A. 2009 Aug 4;106(31):12735-40. doi: 10.1073/pnas.0902169106. Epub 2009 Jul 21.

9.

Linking molecular affinity and cellular specificity in cadherin-mediated adhesion.

Katsamba P, Carroll K, Ahlsen G, Bahna F, Vendome J, Posy S, Rajebhosale M, Price S, Jessell TM, Ben-Shaul A, Shapiro L, Honig BH.

Proc Natl Acad Sci U S A. 2009 Jul 14;106(28):11594-9. doi: 10.1073/pnas.0905349106. Epub 2009 Jun 24.

10.

Physicochemical principles that regulate the competition between functional and dysfunctional association of proteins.

Pechmann S, Levy ED, Tartaglia GG, Vendruscolo M.

Proc Natl Acad Sci U S A. 2009 Jun 23;106(25):10159-64. doi: 10.1073/pnas.0812414106. Epub 2009 Jun 5.

11.

Intrinsic disorder in protein interactions: insights from a comprehensive structural analysis.

Fong JH, Shoemaker BA, Garbuzynskiy SO, Lobanov MY, Galzitskaya OV, Panchenko AR.

PLoS Comput Biol. 2009 Mar;5(3):e1000316. doi: 10.1371/journal.pcbi.1000316. Epub 2009 Mar 13.

12.

CDD: specific functional annotation with the Conserved Domain Database.

Marchler-Bauer A, Anderson JB, Chitsaz F, Derbyshire MK, DeWeese-Scott C, Fong JH, Geer LY, Geer RC, Gonzales NR, Gwadz M, He S, Hurwitz DI, Jackson JD, Ke Z, Lanczycki CJ, Liebert CA, Liu C, Lu F, Lu S, Marchler GH, Mullokandov M, Song JS, Tasneem A, Thanki N, Yamashita RA, Zhang D, Zhang N, Bryant SH.

Nucleic Acids Res. 2009 Jan;37(Database issue):D205-10. doi: 10.1093/nar/gkn845. Epub 2008 Nov 4.

13.

Structural and functional analysis of a glycoside hydrolase family 97 enzyme from Bacteroides thetaiotaomicron.

Kitamura M, Okuyama M, Tanzawa F, Mori H, Kitago Y, Watanabe N, Kimura A, Tanaka I, Yao M.

J Biol Chem. 2008 Dec 26;283(52):36328-37. doi: 10.1074/jbc.M806115200. Epub 2008 Nov 3.

14.

Emergence of symmetry in homooligomeric biological assemblies.

André I, Strauss CE, Kaplan DB, Bradley P, Baker D.

Proc Natl Acad Sci U S A. 2008 Oct 21;105(42):16148-52. doi: 10.1073/pnas.0807576105. Epub 2008 Oct 10.

15.
16.

Built-in loops allow versatility in domain-domain interactions: lessons from self-interacting domains.

Akiva E, Itzhaki Z, Margalit H.

Proc Natl Acad Sci U S A. 2008 Sep 9;105(36):13292-7. doi: 10.1073/pnas.0801207105. Epub 2008 Aug 29.

17.

The Zyggregator method for predicting protein aggregation propensities.

Tartaglia GG, Vendruscolo M.

Chem Soc Rev. 2008 Jul;37(7):1395-401. doi: 10.1039/b706784b. Epub 2008 May 27. Review.

PMID:
18568165
18.

Assembly reflects evolution of protein complexes.

Levy ED, Boeri Erba E, Robinson CV, Teichmann SA.

Nature. 2008 Jun 26;453(7199):1262-5. doi: 10.1038/nature06942. Epub 2008 Jun 18.

19.

Natural selection against protein aggregation on self-interacting and essential proteins in yeast, fly, and worm.

Chen Y, Dokholyan NV.

Mol Biol Evol. 2008 Aug;25(8):1530-3. doi: 10.1093/molbev/msn122. Epub 2008 May 23.

20.

Protein interactions in human genetic diseases.

Schuster-Böckler B, Bateman A.

Genome Biol. 2008 Jan 16;9(1):R9. doi: 10.1186/gb-2008-9-1-r9.

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