A rational route to probing membrane proteins

Genome Biology

Volumn 8, Issue 5, 2007, Pages

  Keating, Amy E ^a  

^a MASSACHUSETTS INSTITUTE OF TECHNOLOGY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID; CALMODULIN; CELL ADHESION MOLECULE; INTEGRIN; MEMBRANE PROTEIN; PEPTIDE; PROTEIN BCL XL; DIAGNOSTIC AGENT;

CELL SURFACE; ENZYME SPECIFICITY; HUMAN; MOLECULAR BIOLOGY; MOLECULAR PROBE; MOLECULAR RECOGNITION; NONHUMAN; PROTEIN ANALYSIS; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN FOLDING; PROTEIN FUNCTION; PROTEIN PROTEIN INTERACTION; PROTEIN STRUCTURE; SHORT SURVEY; BIOLOGY; CHEMISTRY; DRUG DESIGN; GENETIC PROCEDURES; METHODOLOGY; PHYSIOLOGY; REVIEW; SENSITIVITY AND SPECIFICITY;

COMPUTATIONAL BIOLOGY; DRUG DESIGN; MEMBRANE PROTEINS; MOLECULAR PROBE TECHNIQUES; PEPTIDES; SENSITIVITY AND SPECIFICITY;

EID: 34548843671     PISSN: 14747596     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/gb-2007-8-5-214     Document Type: Short Survey

References (14)

1. Dahiyat BI Mayo SL De novo protein design: Fully automated sequence selection. Science 1997 278 82 87 10.1126/science.278.5335.82 9311930
2. Dantas G Kuhlman B Callender D Wong M Baker D A large scale test of computational protein design: Folding and stability of nine completely redesigned globular proteins. J Mol Biol 2003 332 449-460 10.1016/ S0022-2836(03)00888-X 12948494
3. Harbury PB Plecs JJ Tidor B Alber T Kim PS High-resolution protein design with backbone freedom. Science 1998 282 1462-1467 10.1126/ science.282.5393.1462 9822371
4. Kuhlman B Dantas G Ireton GC Varani G Stoddard BL Baker D Design of a novel globular protein fold with atomic-level accuracy. Science 2003 302 1364-1368 10.1126/science.1089427 14631033
5. Looger LL Dwyer MA Smith JJ Hellinga HW Computational design of receptor and sensor proteins with novel functions. Nature 2003 423 185-190 10.1038/nature01556 12736688
6. Bolon DN Mayo SL Enzyme-like proteins by computational design. Proc Natl Acad Sci USA 2001 98 14274-14279 64672 11724958 10.1073/pnas.251555398
7. Dwyer MA Looger LL Hellinga HW Computational design of a biologically active enzyme. Science 2004 304 1967-1971 10.1126/science.1098432 15218149
8. Yin H Slusky JS Berger BW Walters RS Vilaire G Litvinov RI Lear JD Caputo GA Bennett JS DeGrado WF Computational design of peptides that target transmembrane helices. Science 2007 315 1817-1822 17395823
9. Ghirlanda G Lear JD Lombardi A DeGrado WF From synthetic coiled coils to functional proteins: Automated design of a receptor for the calmodulin-binding domain of calcineurin. J Mol Biol 1998 281 379-391 10.1006/jmbi.1998.1912 9698554
10. Reina J Lacroix E Hobson SD Fernandez-Ballester G Rybin V Schwab MS Serrano L Gonzalez C Computer-aided design of a PDZ domain to recognize new target sequences. Nat Struct Biol 2002 9 621-627 12080331
11. Shifman JM Mayo SL Exploring the origins of binding specificity through the computational redesign of calmodulin. Proc Natl Acad Sci USA 2003 100 13274-13279 263780 14597710 10.1073/pnas.2234277100
12. Fu X Apgar JR Keating AE Modeling backbone flexibility to achieve sequence diversity: The design of novel alpha-helical ligands for Bcl-xL. J Mol Biol 2007 doi:10.1016/j.jmb.2007.04.069 17198713
13. Walters RF DeGrado WF Helix-packing motifs in membrane proteins. Proc Natl Acad Sci USA 2006 103 13658-13663 1564267 16954199 10.1073/ pnas.0605878103
14. Boas FE Harbury PB Potential energy functions for protein design. Curr Opin Struct Biol 2007 17 199-204 10.1016/j.sbi.2007.03.006 17387014