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Items: 1 to 20 of 38

1.

Computational design of proteins targeting the conserved stem region of influenza hemagglutinin.

Fleishman SJ, Whitehead TA, Ekiert DC, Dreyfus C, Corn JE, Strauch EM, Wilson IA, Baker D.

Science. 2011 May 13;332(6031):816-21. doi: 10.1126/science.1202617.

2.

A de novo protein binding pair by computational design and directed evolution.

Karanicolas J, Corn JE, Chen I, Joachimiak LA, Dym O, Peck SH, Albeck S, Unger T, Hu W, Liu G, Delbecq S, Montelione GT, Spiegel CP, Liu DR, Baker D.

Mol Cell. 2011 Apr 22;42(2):250-60. doi: 10.1016/j.molcel.2011.03.010. Epub 2011 Mar 31.

3.

SUPERFAMILY 1.75 including a domain-centric gene ontology method.

de Lima Morais DA, Fang H, Rackham OJ, Wilson D, Pethica R, Chothia C, Gough J.

Nucleic Acids Res. 2011 Jan;39(Database issue):D427-34. doi: 10.1093/nar/gkq1130. Epub 2010 Nov 9.

4.

Mechanisms of protein oligomerization, the critical role of insertions and deletions in maintaining different oligomeric states.

Hashimoto K, Panchenko AR.

Proc Natl Acad Sci U S A. 2010 Nov 23;107(47):20352-7. doi: 10.1073/pnas.1012999107. Epub 2010 Nov 3.

5.

A simple definition of structural regions in proteins and its use in analyzing interface evolution.

Levy ED.

J Mol Biol. 2010 Nov 5;403(4):660-70. doi: 10.1016/j.jmb.2010.09.028. Epub 2010 Sep 22.

PMID:
20868694
6.

Protein interface conservation across structure space.

Zhang QC, Petrey D, Norel R, Honig BH.

Proc Natl Acad Sci U S A. 2010 Jun 15;107(24):10896-901. doi: 10.1073/pnas.1005894107. Epub 2010 Jun 1.

7.

Conserved residue clusters at protein-protein interfaces and their use in binding site identification.

Guharoy M, Chakrabarti P.

BMC Bioinformatics. 2010 May 27;11:286. doi: 10.1186/1471-2105-11-286.

8.

Ubiquitin--molecular mechanisms for recognition of different structures.

Perica T, Chothia C.

Curr Opin Struct Biol. 2010 Jun;20(3):367-76. doi: 10.1016/j.sbi.2010.03.007. Epub 2010 Apr 22. Review.

PMID:
20456943
9.

Proteome organization in a genome-reduced bacterium.

Kühner S, van Noort V, Betts MJ, Leo-Macias A, Batisse C, Rode M, Yamada T, Maier T, Bader S, Beltran-Alvarez P, Castaño-Diez D, Chen WH, Devos D, Güell M, Norambuena T, Racke I, Rybin V, Schmidt A, Yus E, Aebersold R, Herrmann R, Böttcher B, Frangakis AS, Russell RB, Serrano L, Bork P, Gavin AC.

Science. 2009 Nov 27;326(5957):1235-40. doi: 10.1126/science.1176343.

10.

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.

11.

Dissecting an allosteric switch in caspase-7 using chemical and mutational probes.

Hardy JA, Wells JA.

J Biol Chem. 2009 Sep 18;284(38):26063-9. doi: 10.1074/jbc.M109.001826. Epub 2009 Jul 6.

12.

Protein-protein interaction and quaternary structure.

Janin J, Bahadur RP, Chakrabarti P.

Q Rev Biophys. 2008 May;41(2):133-80. doi: 10.1017/S0033583508004708. Review.

PMID:
18812015
13.

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.

14.

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.

15.

Regulation of pyrimidine biosynthetic gene expression in bacteria: repression without repressors.

Turnbough CL Jr, Switzer RL.

Microbiol Mol Biol Rev. 2008 Jun;72(2):266-300, table of contents. doi: 10.1128/MMBR.00001-08. Review.

16.

Dimerization affects collective dynamics of triosephosphate isomerase.

Cansu S, Doruker P.

Biochemistry. 2008 Feb 5;47(5):1358-68. doi: 10.1021/bi701916b. Epub 2008 Jan 12.

PMID:
18189421
17.

Designed protein-protein association.

Grueninger D, Treiber N, Ziegler MO, Koetter JW, Schulze MS, Schulz GE.

Science. 2008 Jan 11;319(5860):206-9. doi: 10.1126/science.1150421.

18.

3D complex: a structural classification of protein complexes.

Levy ED, Pereira-Leal JB, Chothia C, Teichmann SA.

PLoS Comput Biol. 2006 Nov 17;2(11):e155. Epub 2006 Oct 5.

19.

The many faces of protein-protein interactions: A compendium of interface geometry.

Kim WK, Henschel A, Winter C, Schroeder M.

PLoS Comput Biol. 2006 Sep 29;2(9):e124. Epub 2006 Jul 31.

20.

Relation between native ensembles and experimental structures of proteins.

Best RB, Lindorff-Larsen K, DePristo MA, Vendruscolo M.

Proc Natl Acad Sci U S A. 2006 Jul 18;103(29):10901-6. Epub 2006 Jul 7.

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