Solution NMR mapping of water-accessible residues in the transmembrane β-barrel of OmpX

European Biophysics Journal

Volumn 39, Issue 4, 2010, Pages 623-630

  Catoire, Laurent J ^a   Zoonens, Manuela ^a   Van Heijenoort, Carine ^b   Giusti, Fabrice ^a   Guittet, Éric ^b   Popot, Jean Luc ^a  

^a INST DE BIOLOGIE PHYSICO CHIMIQUE   (France)

^b CNRS   (France)

Author keywords

Amphipol A8 35; Hydrogen deuterium exchange; Membrane protein; OmpX; Surfactant

Indexed keywords

1,2 HEXANOYLPHOSPHATIDYLCHOLINE; 1,2-HEXANOYLPHOSPHATIDYLCHOLINE; AMPHIPOL A8 35; AMPHIPOL A8-35; DETERGENT; ESCHERICHIA COLI PROTEIN; HYDROLASE; OMPX PROTEIN, E COLI; OUTER MEMBRANE PROTEIN; PHOSPHATIDYLCHOLINE; POLYMER; PROPYLAMINE; SOLVENT; WATER;

AMINO ACID SEQUENCE; ARTICLE; CELL MEMBRANE; CHEMISTRY; DEUTERIUM HYDROGEN EXCHANGE; MOLECULAR GENETICS; NUCLEAR MAGNETIC RESONANCE; PROTEIN SECONDARY STRUCTURE;

AMINO ACID SEQUENCE; BACTERIAL OUTER MEMBRANE PROTEINS; CELL MEMBRANE; DETERGENTS; DEUTERIUM EXCHANGE MEASUREMENT; ESCHERICHIA COLI PROTEINS; HYDROLASES; MOLECULAR SEQUENCE DATA; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; PHOSPHATIDYLCHOLINES; POLYMERS; PROPYLAMINES; PROTEIN STRUCTURE, SECONDARY; SOLVENTS; WATER;

BACTERIA (MICROORGANISMS);

EID: 77951288279     PISSN: 01757571     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00249-009-0513-2     Document Type: Article

References (26)

1. VE Ahn EI Lo CK Engel L Chen PM Hwang LE Kay RE Bishop GG Privé 2004 A hydrocarbon ruler measures palmitate in the enzymatic acylation of endotoxin EMBO J 23 2931 2941 10.1038/sj.emboj.7600320 1:CAS:528: DC%2BD2cXmt1ajsrc%3D 15272304 (Pubitemid 39093588)
2. T Arnold M Poynor S Nussberger AN Lupas D Linke 2007 Gene duplication of the eight-stranded β-barrel OmpX produces a functional pore: a scenario for the evolution of transmembrane β-barrel J Mol Biol 366 1174 1184 10.1016/j.jmb.2006.12.029 1:CAS:528:DC%2BD2sXhtlehs7s%3D 17217961 (Pubitemid 46186395)
3. C Baldermann A Lupas J Lubieniecki H Engelhardt 1998 The regulated outer membrane protein Omp21 from Comamonas acidovorans is identified as a member of a new family of eight-stranded beta-sheet proteins by its sequence and properties J Bacteriol 180 3741 3749 1:CAS:528:DyaK1cXlt1Chs7Y%3D 9683466
4. RA Böckmann A Caflisch 2005 Spontaneous formation of detergent micelles around the outer membrane protein X Biophys J 88 3191 3204 10.1529/biophysj.105.060426 15749771 (Pubitemid 40586572)
5. LJ Catoire M Zoonens C van Heijenoort F Giusti J-L Popot É Guittet 2009 Inter- and intra-molecular contacts in a membrane protein/surfactant complex observed by heteronuclear dipole-to-dipole cross-relaxation J Magn Reson 197 91 95 10.1016/j.jmr.2008.11.017 1:CAS:528:DC%2BD1MXitlGgu7k%3D 19101186
6. K Cox PJ Bond A Grottesi M Baaden MS Sansom 2008 Outer membrane proteins: comparing X-ray and NMR structures by MD simulations in lipid bilayers Eur Biophys J 37 131 141 10.1007/s00249-007-0185-8 1:CAS:528:DC%2BD1cXlt1GlsA%3D%3D 17551722
7. F Delaglio S Grzesiek GW Vuister G Zhu J Pfeifer A Bax 1995 NMRPipe: a multidimensional spectral processing system based on UNIX pipes J Biomol NMR 6 277 293 10.1007/BF00197809 1:CAS:528:DyaK2MXhtVSmurfK 8520220
8. C Diab C Tribet Y Gohon J-L Popot FM Winnik 2007 Complexation of integral membrane proteins by phosphorylcholine-based amphipols Biochim Biophys Acta 1768 2737 2747 10.1016/j.bbamem.2007.07.007 1:CAS:528:DC%2BD2sXht12gurfE 17825785 (Pubitemid 350081033)
9. M Dupont E Dé R Chollet J Chevalier J-M Pagès 2004 Enterobacter aerogenes OmpX, a cation-selective channel mar- and osmo-regulated FEBS Lett 569 27 30 10.1016/j.febslet.2004.05.047 1:CAS:528:DC%2BD2cXlt1amtrs%3D 15225603 (Pubitemid 38844587)
10. C Fernández K Adeishvili K Wüthrich 2001 Transverse relaxation-optimized NMR spectroscopy with the outer membrane protein OmpX in dihexanoyl phosphatidylcholine micelles Proc Natl Acad Sci USA 98 2358 2363 10.1073/pnas.051629298 11226244 (Pubitemid 32209487)
11. C Fernández C Hilty G Wider P Günter K Wüthrich 2004 NMR structure of the integral membrane protein OmpX J Mol Biol 336 1211 1221 10.1016/j.jmb.2003.09.014 15037080 (Pubitemid 38229708)
12. Y Gohon G Pavlov P Timmins C Tribet Popot J-L C Ebel 2004 Partial specific volume and solvent interactions of amphipol A8-35 Anal Biochem 334 318 334 10.1016/j.ab.2004.07.033 1:CAS:528:DC%2BD2cXos1KlsLo%3D 15494140 (Pubitemid 39370968)
13. Y Gohon F Giusti C Prata D Charvolin P Timmins C Ebel C Tribet Popot J-L 2006 Well-defined nanoparticles formed by hydrophobic assembly of a short and polydisperse random terpolymer, amphipol A8-35 Langmuir 22 1281 1290 10.1021/la052243g 1:CAS:528:DC%2BD28Xht1Sisw%3D%3D 16430295 (Pubitemid 43282189)
14. Y Gohon T Dahmane R Ruigrok P Schuck D Charvolin F Rappaport P Timmins DM Engelman C Tribet J-L Popot C Ebel 2008 Bacteriorhodopsin/amphipol complexes: structural and functional properties Biophys J 94 3523 3537 10.1529/biophysj. 107.121848 1:CAS:528:DC%2BD1cXltVOhtLk%3D 18192360
15. EM Hearn DR Patel BW Lepore M Indic B van den Berg 2009 Transmembrane passage of hydrophobic compounds through a protein channel wall Nature 458 367 370 10.1038/nature07678 1:CAS:528:DC%2BD1MXht1ehsrs%3D 19182779
16. H Hong G Szabo LK Tamm 2006 Electrostatic couplings in OmpA ion-channel gating suggest a mechanism for pore opening Nat Chem Biol 2 627 635 10.1038/nchembio827 1:CAS:528:DC%2BD28XhtV2gsr3I 17041590 (Pubitemid 44610347)
17. H Hong DR Patel LK Tamm B van den Berg 2006 The outer membrane protein OmpW forms an eight-stranded beta-barrel with a hydrophobic channel J Biol Chem 281 7568 7577 10.1074/jbc.M512365200 1:CAS:528:DC%2BD28Xit1ygtb8%3D 16414958 (Pubitemid 43847527)
18. PM Hwang WY Choy EI Lo L Chen JD Forman-Kay CR Raetz GG Privé RE Bishop LE Kay 2002 Solution structure and dynamics of the outer membrane enzyme PagP by NMR Proc Natl Acad Sci USA 99 13560 13565 10.1073/pnas.212344499 1:CAS:528:DC%2BD38XotVKmsLg%3D 12357033 (Pubitemid 35215421)
19. BA Johnson RA Blevins 1994 NMRView: a computer program for the visualization and analysis of NMR data J Biomol NMR 4 603 614 10.1007/BF00404272 1:CAS:528:DyaK2cXmt1Gkurw%3D
20. D Lee C Hilty G Wider K Wüthrich 2006 Effective rotational correlation times of proteins from NMR relaxation interference J Magn Reson 178 72 76 10.1016/j.jmr.2005.08.014 1:CAS:528:DC%2BD2MXht12it7fI 16188473 (Pubitemid 41774013)
21. K Pervushin R Riek G Wider K Wüthrich 1997 Attenuated T2 relaxation by mutual cancellation of dipole-dipole coupling and chemical shift anisotropy indicates an avenue to NMR structures of very large biological macromolecules in solution Proc Natl Acad Sci USA 94 12366 12371 10.1073/pnas.94.23.12366 1:CAS:528:DyaK2sXns1ylsL8%3D 9356455 (Pubitemid 27492534)
22. J-L Popot EA Berry D Charvolin C Creuzenet C Ebel DM Engelman M Flötenmeyer F Giusti Y Gohon P Hervé Q Hong JH Lakey K Leonard HA Shuman P Timmins DE Warschawski F Zito M Zoonens B Pucci C Tribet 2003 Amphipols: polymeric surfactants for membrane biology research Cell Mol Life Sci 60 1559 1574 10.1007/s00018-003-3169-6 1:CAS:528:DC%2BD3sXnsFynur4%3D 14513831 (Pubitemid 37041355)
23. KS Sharma G Durand F Giusti B Olivier AS Fabiano P Bazzacco T Dahmane C Ebel J-L Popot B Pucci 2008 Glucose-based amphiphilic telomers designed to keep membrane proteins soluble in aqueous solutions: synthesis and physical-chemical characterization Langmuir 24 13581 13590 10.1021/la8023056 1:CAS:528: DC%2BD1cXhtlant7vL 18980351
24. C Tribet R Audebert J-L Popot 1996 Amphipols: polymers that keep membrane proteins soluble in aqueous solutions Proc Natl Acad Sci USA 93 15047 15050 10.1073/pnas.93.26.15047 1:CAS:528:DyaK2sXmslyq 8986761 (Pubitemid 27009549)
25. J Vogt GE Schulz 1999 The structure of the outer membrane protein OmpX from Escherichia coli reveals possible mechanisms of virulence Structure 7 1301 1309 10.1016/S0969-2126(00)80063-5 1:CAS:528:DyaK1MXntFChs7o%3D 10545325 (Pubitemid 29482991)
26. M Zoonens LJ Catoire F Giusti J-L Popot 2005 NMR study of a membrane protein in detergent-free aqueous solution Proc Natl Acad Sci USA 102 8893 8898 10.1073/pnas.0503750102 1:CAS:528:DC%2BD2MXlvF2qurg%3D 15956183 (Pubitemid 40881049)