Lu P, Min D, DiMaio F, Wei KY, Vahey MD, Boyken SE, Chen Z, Fallas JA, Ueda G, Sheffler W, Mulligan VK, Xu W, Bowie JU, Baker D
Accurate computational design of multipass transmembrane proteins.

Science. 03 2018. 359(6379):1042-1046. 2018 PMID: 29496880
| 10.1126/science.aaq1739


Rothé B, Leettola CN, Leal-Esteban L, Cascio D, Fortier S, Isenschmid M, Bowie JU, Constam DB
Crystal Structure of Bicc1 SAM Polymer and Mapping of Interactions between the Ciliopathy-Associated Proteins Bicc1, ANKS3, and ANKS6.

Structure. Dec 2017. :. 2017 PMID: 29290488
| 10.1016/j.str.2017.12.002

Cao Z, Hutchison JM, Sanders CR, Bowie JU
Backbone hydrogen bond strengths can vary widely in transmembrane helices.

J. Am. Chem. Soc.. Jul 2017. :. 2017 PMID: 28692798
| 10.1021/jacs.7b04819

Opgenorth PH, Korman TP, Iancu L, Bowie JU
A molecular rheostat maintains ATP levels to drive a synthetic biochemistry system.

Nat. Chem. Biol.. Jul 2017. :. 2017 PMID: 28671683
| 10.1038/nchembio.2418

Korman TP, Opgenorth PH, Bowie JU
A synthetic biochemistry platform for cell free production of monoterpenes from glucose.

Nat Commun. May 2017. 8:15526. 2017 PMID: 28537253
| PMC5458089 | 10.1038/ncomms15526

Jefferson RE, Min D, Corin K, Wang JY, Bowie JU
Applications of Single-Molecule Methods to Membrane Protein Folding Studies.

J. Mol. Biol.. May 2017. :. 2017 PMID: 28549924
| PMC5458089 | 10.1016/j.jmb.2017.05.021

Woodall NB, Hadley S, Yin Y, Bowie JU
Complete topology inversion can be part of normal membrane protein biogenesis.

Protein Sci.. Apr 2017. 26(4):824-833. 2017 PMID: 28168866
| PMC5368078 | 10.1002/pro.3131


Vinokur JM, Cummins MC, Korman TP, Bowie JU
An Adaptation To Life In Acid Through A Novel Mevalonate Pathway.

Sci Rep. Dec 2016. 6:39737. 2016 PMID: 28004831
| PMC5177888 | 10.1038/srep39737

Opgenorth PH, Korman TP, Bowie JU
A synthetic biochemistry module for production of bio-based chemicals from glucose.

Nat. Chem. Biol.. Apr 2016. :. 2016 PMID: 27065234
| PMC5177888 | 10.1038/nchembio.2062

Spielmann M, Kakar N, Tayebi N, Leettola C, Nürnberg G, Sowada N, Lupiáñez DG, Harabula I, Flöttmann R, Horn D, Chan WL, Wittler L, Yilmaz R, Altmüller J, Thiele H, van Bokhoven H, Schwartz CE, Nürnberg P, Bowie JU, Ahmad J, Kubisch C, Mundlos S, Borck G
Exome sequencing and CRISPR/Cas genome editing identify mutations of ZAK as a cause of limb defects in humans and mice.

Genome Res.. Feb 2016. 26(2):183-91. 2016 PMID: 26755636
| PMC4728371 | 10.1101/gr.199430.115

Sherkhanov S, Korman TP, Clarke SG, Bowie JU
Production of FAME biodiesel in E. coli by direct methylation with an insect enzyme.

Sci Rep. 2016. 6:24239. 2016 PMID: 27053100
| PMC4728371 | 10.1038/srep24239

Min D, Arbing MA, Jefferson RE, Bowie JU
A simple DNA handle attachment method for single molecule mechanical manipulation experiments.

Protein Sci.. 08 2016. 25(8):1535-44. 2016 PMID: 27222403
| PMC4972209 | 10.1002/pro.2952


Cheng X, Kim JK, Kim Y, Bowie JU, Im W
Molecular dynamics simulation strategies for protein-micelle complexes.

Biochim. Biophys. Acta. Dec 2015. :. 2015 PMID: 26679426
| PMC4972209 | 10.1016/j.bbamem.2015.12.012

Min D, Jefferson RE, Bowie JU, Yoon TY
Mapping the energy landscape for second-stage folding of a single membrane protein.

Nat. Chem. Biol.. Oct 2015. :. 2015 PMID: 26479439
| PMC4972209 | 10.1038/nchembio.1939

Bowie JU, Post CB
Introduction to the 29th annual symposium of the protein society abstracts issue.

Protein Sci.. Oct 2015. :. 2015 PMID: 26449130
| PMC4972209 | 10.1002/pro.2822

Vinokur JM, Korman TP, Sawaya MR, Collazo M, Cascio D, Bowie JU
Structural analysis of mevalonate-3-kinase provides insight into the mechanisms of isoprenoid pathway decarboxylases.

Protein Sci.. Feb 2015. 24(2):212-20. 2015 PMID: 25422158
| PMC4315659 | 10.1002/pro.2607

Nam HJ, Kim I, Bowie JU, Kim S
Metazoans evolved by taking domains from soluble proteins to expand intercellular communication network.

Sci Rep. 2015. 5:9576. 2015 PMID: 25923201
| PMC4315659 | 10.1038/srep09576

Woodall NB, Yin Y, Bowie JU
Dual-topology insertion of a dual-topology membrane protein.

Nat Commun. 2015. 6:8099. 2015 PMID: 26306475
| PMC4560821 | 10.1038/ncomms9099


Schlebach JP, Woodall NB, Bowie JU, Park C
Bacteriorhodopsin folds through a poorly organized transition state.

J. Am. Chem. Soc.. Nov 2014. 136(47):16574-81. 2014 PMID: 25369295
| PMC4277764 | 10.1021/ja508359n

Sherkhanov S, Korman TP, Bowie JU
Improving the tolerance of Escherichia coli to medium-chain fatty acid production.

Metab. Eng.. Sep 2014. 25:1-7. 2014 PMID: 24932721
| PMC4277764 | 10.1016/j.ymben.2014.06.003

Vinokur JM, Korman TP, Cao Z, Bowie JU
Evidence of a novel mevalonate pathway in archaea.

Biochemistry. Jul 2014. 53(25):4161-8. 2014 PMID: 24914732
| PMC4081127 | 10.1021/bi500566q

Korman TP, Sahachartsiri B, Li D, Vinokur JM, Eisenberg D, Bowie JU
A synthetic biochemistry system for the in vitro production of isoprene from glycolysis intermediates.

Protein Sci.. May 2014. 23(5):576-85. 2014 PMID: 24623472
| PMC4005709 | 10.1002/pro.2436

Cao Z, Bowie JU
An energetic scale for equilibrium H/D fractionation factors illuminates hydrogen bond free energies in proteins.

Protein Sci.. May 2014. 23(5):566-75. 2014 PMID: 24501090
| PMC4005708 | 10.1002/pro.2435

Chang YC, Bowie JU
Measuring membrane protein stability under native conditions.

Proc. Natl. Acad. Sci. U.S.A.. Jan 2014. 111(1):219-24. 2014 PMID: 24367094
| PMC3890813 | 10.1073/pnas.1318576111

Leettola CN, Knight MJ, Cascio D, Hoffman S, Bowie JU
Characterization of the SAM domain of the PKD-related protein ANKS6 and its interaction with ANKS3.

BMC Struct. Biol.. 2014. 14:17. 2014 PMID: 24998259
| PMC4105859 | 10.1186/1472-6807-14-17

Opgenorth PH, Korman TP, Bowie JU
A synthetic biochemistry molecular purge valve module that maintains redox balance.

Nat Commun. 2014. 5:4113. 2014 PMID: 24936528
| PMC4105859 | 10.1038/ncomms5113


Jefferson RE, Blois TM, Bowie JU
Membrane proteins can have high kinetic stability.

J. Am. Chem. Soc.. Oct 2013. 135(40):15183-90. 2013 PMID: 24032628
| PMC3839629 | 10.1021/ja407232b | NIHMS527776

Bowie JU
Structural biology. Membrane protein twists and turns.

Science. Jan 2013. 339(6118):398-9. 2013 PMID: 23349275
| PMC3839629 | 10.1126/science.1228655

Hong H, Chang YC, Bowie JU
Measuring transmembrane helix interaction strengths in lipid bilayers using steric trapping.

Methods Mol. Biol.. 2013. 1063:37-56. 2013 PMID: 23975771
| PMC3839629 | 10.1007/978-1-62703-583-5_3

Korman TP, Sahachartsiri B, Charbonneau DM, Huang GL, Beauregard M, Bowie JU
Dieselzymes: development of a stable and methanol tolerant lipase for biodiesel production by directed evolution.

Biotechnol Biofuels. 2013. 6(1):70. 2013 PMID: 23648063
| PMC3670234 | 10.1186/1754-6834-6-70

Nam HJ, Han SK, Bowie JU, Kim S
Rampant exchange of the structure and function of extramembrane domains between membrane and water soluble proteins.

PLoS Comput. Biol.. 2013. 9(3):e1002997. 2013 PMID: 23555228
| PMC3605051 | 10.1371/journal.pcbi.1002997


Meruelo AD, Han SK, Kim S, Bowie JU
Structural differences between thermophilic and mesophilic membrane proteins.

Protein Sci.. Nov 2012. 21(11):1746-53. 2012 PMID: 23001966
| PMC3527711 | 10.1002/pro.2157

Cao Z, Bowie JU
Shifting hydrogen bonds may produce flexible transmembrane helices.

Proc. Natl. Acad. Sci. U.S.A.. May 2012. 109(21):8121-6. 2012 PMID: 22566663
| PMC3361389 | 10.1073/pnas.1201298109

Cao Z, Schlebach JP, Park C, Bowie JU
Thermodynamic stability of bacteriorhodopsin mutants measured relative to the bacterioopsin unfolded state.

Biochim. Biophys. Acta. Apr 2012. 1818(4):1049-54. 2012 PMID: 21880269
| PMC3272320 | 10.1016/j.bbamem.2011.08.019 | NIHMS324837

Schlebach JP, Cao Z, Bowie JU, Park C
Revisiting the folding kinetics of bacteriorhodopsin.

Protein Sci.. Jan 2012. 21(1):97-106. 2012 PMID: 22095725
| PMC3323784 | 10.1002/pro.766

Korman TP, Bowie JU
Crystal structure of Proteus mirabilis lipase, a novel lipase from the Proteus/psychrophilic subfamily of lipase family I.1.

PLoS ONE. 2012. 7(12):e52890. 2012 PMID: 23300806
| PMC3530535 | 10.1371/journal.pone.0052890

Kim J, Kim I, Han SK, Bowie JU, Kim S
Network rewiring is an important mechanism of gene essentiality change.

Sci Rep. 2012. 2:900. 2012 PMID: 23198090
| PMC3509348 | 10.1038/srep00900


Stafford RL, Hinde E, Knight MJ, Pennella MA, Ear J, Digman MA, Gratton E, Bowie JU
Tandem SAM domain structure of human Caskin1: a presynaptic, self-assembling scaffold for CASK.

Structure. Dec 2011. 19(12):1826-36. 2011 PMID: 22153505
| PMC3240820 | 10.1016/j.str.2011.09.018 | NIHMS331236

Ujwal R, Bowie JU
Crystallizing membrane proteins using lipidic bicelles.

Methods. Dec 2011. 55(4):337-41. 2011 PMID: 21982781
| PMC3264687 | 10.1016/j.ymeth.2011.09.020 | NIHMS332380

Knight MJ, Leettola C, Gingery M, Li H, Bowie JU
A human sterile alpha motif domain polymerizome.

Protein Sci.. Oct 2011. 20(10):1697-706. 2011 PMID: 21805519
| PMC3218363 | 10.1002/pro.703

Stafford RL, Ear J, Knight MJ, Bowie JU
The molecular basis of the Caskin1 and Mint1 interaction with CASK.

J. Mol. Biol.. Sep 2011. 412(1):3-13. 2011 PMID: 21763699
| PMC3158819 | 10.1016/j.jmb.2011.07.005 | NIHMS311801

Hong H, Bowie JU
Dramatic destabilization of transmembrane helix interactions by features of natural membrane environments.

J. Am. Chem. Soc.. Jul 2011. 133(29):11389-98. 2011 PMID: 21682279
| PMC3140635 | 10.1021/ja204524c | NIHMS307701

Meruelo AD, Samish I, Bowie JU
TMKink: a method to predict transmembrane helix kinks.

Protein Sci.. Jul 2011. 20(7):1256-64. 2011 PMID: 21563225
| PMC3149198 | 10.1002/pro.653

Stafford RL, Tang MY, Sawaya MR, Phillips ML, Bowie JU
Crystal structure of the central coiled-coil domain from human liprin-β2.

Biochemistry. May 2011. 50(18):3807-15. 2011 PMID: 21462929
| PMC3093129 | 10.1021/bi200141e | NIHMS289730

Schlebach JP, Kim MS, Joh NH, Bowie JU, Park C
Probing membrane protein unfolding with pulse proteolysis.

J. Mol. Biol.. Mar 2011. 406(4):545-51. 2011 PMID: 21192947
| PMC3039306 | 10.1016/j.jmb.2010.12.018 | NIHMS268789

Grabrucker AM, Knight MJ, Proepper C, Bockmann J, Joubert M, Rowan M, Nienhaus GU, Garner CC, Bowie JU, Kreutz MR, Gundelfinger ED, Boeckers TM
Concerted action of zinc and ProSAP/Shank in synaptogenesis and synapse maturation.

EMBO J.. Feb 2011. 30(3):569-81. 2011 PMID: 21217644
| PMC3034012 | 10.1038/emboj.2010.336

Bowie JU
Membrane protein folding: how important are hydrogen bonds?

Curr. Opin. Struct. Biol.. Feb 2011. 21(1):42-9. 2011 PMID: 21075614
| PMC3073540 | 10.1016/j.sbi.2010.10.003 | NIHMS253374


Hong H, Blois TM, Cao Z, Bowie JU
Method to measure strong protein-protein interactions in lipid bilayers using a steric trap.

Proc. Natl. Acad. Sci. U.S.A.. Nov 2010. 107(46):19802-7. 2010 PMID: 21041662
| PMC2993359 | 10.1073/pnas.1010348107

Knight MJ, Joubert MK, Plotkowski ML, Kropat J, Gingery M, Sakane F, Merchant SS, Bowie JU
Zinc binding drives sheet formation by the SAM domain of diacylglycerol kinase δ.

Biochemistry. Nov 2010. 49(44):9667-76. 2010 PMID: 20857926
| PMC3035719 | 10.1021/bi101261x | NIHMS243376

Ryan CM, Souda P, Bassilian S, Ujwal R, Zhang J, Abramson J, Ping P, Durazo A, Bowie JU, Hasan SS, Baniulis D, Cramer WA, Faull KF, Whitelegge JP
Post-translational modifications of integral membrane proteins resolved by top-down Fourier transform mass spectrometry with collisionally activated dissociation.

Mol. Cell Proteomics. May 2010. 9(5):791-803. 2010 PMID: 20093275
| PMC2871414 | 10.1074/mcp.M900516-MCP200

Di Pietro SM, Cascio D, Feliciano D, Bowie JU, Payne GS
Regulation of clathrin adaptor function in endocytosis: novel role for the SAM domain.

EMBO J.. Mar 2010. 29(6):1033-44. 2010 PMID: 20150898
| PMC2845277 | 10.1038/emboj.2010.5


Oberai A, Joh NH, Pettit FK, Bowie JU
Structural imperatives impose diverse evolutionary constraints on helical membrane proteins.

Proc. Natl. Acad. Sci. U.S.A.. Oct 2009. 106(42):17747-50. 2009 PMID: 19815527
| PMC2764890 | 10.1073/pnas.0906390106

Blois TM, Hong H, Kim TH, Bowie JU
Protein unfolding with a steric trap.

J. Am. Chem. Soc.. Oct 2009. 131(39):13914-5. 2009 PMID: 19739627
| PMC2790274 | 10.1021/ja905725n | NIHMS145054

Joh NH, Oberai A, Yang D, Whitelegge JP, Bowie JU
Similar energetic contributions of packing in the core of membrane and water-soluble proteins.

J. Am. Chem. Soc.. Aug 2009. 131(31):10846-7. 2009 PMID: 19603754
| PMC2744480 | 10.1021/ja904711k | NIHMS132859

Blois TM, Bowie JU
G-protein-coupled receptor structures were not built in a day.

Protein Sci.. Jul 2009. 18(7):1335-42. 2009 PMID: 19536805
| PMC2775204 | 10.1002/pro.165

Massey-Gendel E, Zhao A, Boulting G, Kim HY, Balamotis MA, Seligman LM, Nakamoto RK, Bowie JU
Genetic selection system for improving recombinant membrane protein expression in E. coli.

Protein Sci.. Feb 2009. 18(2):372-83. 2009 PMID: 19165721
| PMC2708063 | 10.1002/pro.39

Meruelo AD, Bowie JU
Identifying polymer-forming SAM domains.

Proteins. Jan 2009. 74(1):1-5. 2009 PMID: 18831011
| PMC2605191 | 10.1002/prot.22232 | NIHMS75657

Hong H, Joh NH, Bowie JU, Tamm LK
Methods for measuring the thermodynamic stability of membrane proteins.

Meth. Enzymol.. 2009. 455:213-36. 2009 PMID: 19289208
| PMC2605191 | 10.1016/S0076-6879(08)04208-0


Joh NH, Min A, Faham S, Whitelegge JP, Yang D, Woods VL, Bowie JU
Modest stabilization by most hydrogen-bonded side-chain interactions in membrane proteins.

Nature. Jun 2008. 453(7199):1266-70. 2008 PMID: 18500332
| PMC2734483 | 10.1038/nature06977 | NIHMS139456

Harada BT, Knight MJ, Imai S, Qiao F, Ramachander R, Sawaya MR, Gingery M, Sakane F, Bowie JU
Regulation of enzyme localization by polymerization: polymer formation by the SAM domain of diacylglycerol kinase delta1.

Structure. Mar 2008. 16(3):380-7. 2008 PMID: 18334213
| PMC2734483 | 10.1016/j.str.2007.12.017

Sapra KT, Balasubramanian GP, Labudde D, Bowie JU, Muller DJ
Point mutations in membrane proteins reshape energy landscape and populate different unfolding pathways.

J. Mol. Biol.. Feb 2008. 376(4):1076-90. 2008 PMID: 18191146
| PMC2742699 | 10.1016/j.jmb.2007.12.027 | NIHMS139454

Gorman PM, Kim S, Guo M, Melnyk RA, McLaurin J, Fraser PE, Bowie JU, Chakrabartty A
Dimerization of the transmembrane domain of amyloid precursor proteins and familial Alzheimer’s disease mutants.

BMC Neurosci. 2008. 9:17. 2008 PMID: 18234110
| PMC2266763 | 10.1186/1471-2202-9-17


Nauli S, Farr S, Lee YJ, Kim HY, Faham S, Bowie JU
Polymer-driven crystallization.

Protein Sci.. Nov 2007. 16(11):2542-51. 2007 PMID: 17962407
| PMC2211692 | 10.1110/ps.073074207

Plotkowski ML, Kim S, Phillips ML, Partridge AW, Deber CM, Bowie JU
Transmembrane domain of myelin protein zero can form dimers: possible implications for myelin construction.

Biochemistry. Oct 2007. 46(43):12164-73. 2007 PMID: 17915947
| PMC2211692 | 10.1021/bi701066h

Pettit FK, Bare E, Tsai A, Bowie JU
HotPatch: a statistical approach to finding biologically relevant features on protein surfaces.

J. Mol. Biol.. Jun 2007. 369(3):863-79. 2007 PMID: 17451744
| PMC2034327 | 10.1016/j.jmb.2007.03.036 | NIHMS24006

Barwe SP, Kim S, Rajasekaran SA, Bowie JU, Rajasekaran AK
Janus model of the Na,K-ATPase beta-subunit transmembrane domain: distinct faces mediate alpha/beta assembly and beta-beta homo-oligomerization.

J. Mol. Biol.. Jan 2007. 365(3):706-14. 2007 PMID: 17078968
| PMC2459552 | 10.1016/j.jmb.2006.10.029 | NIHMS16161


Oberai A, Ihm Y, Kim S, Bowie JU
A limited universe of membrane protein families and folds.

Protein Sci.. Jul 2006. 15(7):1723-34. 2006 PMID: 16815920
| PMC2242558 | 10.1110/ps.062109706

Gundelfinger ED, Boeckers TM, Baron MK, Bowie JU
A role for zinc in postsynaptic density asSAMbly and plasticity?

Trends Biochem. Sci.. Jul 2006. 31(7):366-73. 2006 PMID: 16793273
| PMC2242558 | 10.1016/j.tibs.2006.05.007

Bowie JU
Flip-flopping membrane proteins.

Nat. Struct. Mol. Biol.. Feb 2006. 13(2):94-6. 2006 PMID: 16462808
| PMC2242558 | 10.1038/nsmb0206-94

Baron MK, Boeckers TM, Vaida B, Faham S, Gingery M, Sawaya MR, Salyer D, Gundelfinger ED, Bowie JU
An architectural framework that may lie at the core of the postsynaptic density.

Science. Jan 2006. 311(5760):531-5. 2006 PMID: 16439662
| PMC2242558 | 10.1126/science.1118995

Qiao F, Harada B, Song H, Whitelegge J, Courey AJ, Bowie JU
Mae inhibits Pointed-P2 transcriptional activity by blocking its MAPK docking site.

EMBO J.. Jan 2006. 25(1):70-9. 2006 PMID: 16362034
| PMC1356365 | 10.1038/sj.emboj.7600924


Bowie JU
Solving the membrane protein folding problem.

Nature. Dec 2005. 438(7068):581-9. 2005 PMID: 16319877
| PMC1356365 | 10.1038/nature04395

Kim S, Jeon TJ, Oberai A, Yang D, Schmidt JJ, Bowie JU
Transmembrane glycine zippers: physiological and pathological roles in membrane proteins.

Proc. Natl. Acad. Sci. U.S.A.. Oct 2005. 102(40):14278-83. 2005 PMID: 16179394
| PMC1242278 | 10.1073/pnas.0501234102

Lorch M, Faham S, Kaiser C, Weber I, Mason AJ, Bowie JU, Glaubitz C
How to prepare membrane proteins for solid-state NMR: A case study on the alpha-helical integral membrane protein diacylglycerol kinase from E. coli.

Chembiochem. Sep 2005. 6(9):1693-700. 2005 PMID: 16138309
| PMC1242278 | 10.1002/cbic.200500054

Song H, Nie M, Qiao F, Bowie JU, Courey AJ
Antagonistic regulation of Yan nuclear export by Mae and Crm1 may increase the stringency of the Ras response.

Genes Dev.. Aug 2005. 19(15):1767-72. 2005 PMID: 16027171
| PMC1182338 | 10.1101/gad.1327405

Kim CA, Sawaya MR, Cascio D, Kim W, Bowie JU
Structural organization of a Sex-comb-on-midleg/polyhomeotic copolymer.

J. Biol. Chem.. Jul 2005. 280(30):27769-75. 2005 PMID: 15905166
| PMC1182338 | 10.1074/jbc.M503055200

Qiao F, Bowie JU
The many faces of SAM.

Sci. STKE. May 2005. 2005(286):re7. 2005 PMID: 15928333
| PMC1182338 | 10.1126/stke.2862005re7

Faham S, Boulting GL, Massey EA, Yohannan S, Yang D, Bowie JU
Crystallization of bacteriorhodopsin from bicelle formulations at room temperature.

Protein Sci.. Mar 2005. 14(3):836-40. 2005 PMID: 15689517
| PMC2279272 | 10.1110/ps.041167605

Partridge AW, Liu S, Kim S, Bowie JU, Ginsberg MH
Transmembrane domain helix packing stabilizes integrin alphaIIbbeta3 in the low affinity state.

J. Biol. Chem.. Feb 2005. 280(8):7294-300. 2005 PMID: 15591321
| PMC2279272 | 10.1074/jbc.M412701200

Edwards MD, Li Y, Kim S, Miller S, Bartlett W, Black S, Dennison S, Iscla I, Blount P, Bowie JU, Booth IR
Pivotal role of the glycine-rich TM3 helix in gating the MscS mechanosensitive channel.

Nat. Struct. Mol. Biol.. Feb 2005. 12(2):113-9. 2005 PMID: 15665866
| PMC2279272 | 10.1038/nsmb895

Bowie JU
Cell biology: border crossing.

Nature. Jan 2005. 433(7024):367-9. 2005 PMID: 15674274
| PMC2279272 | 10.1038/433367a


Chamberlain AK, Bowie JU
Analysis of side-chain rotamers in transmembrane proteins.

Biophys. J.. Nov 2004. 87(5):3460-9. 2004 PMID: 15339811
| PMC1304812 | 10.1529/biophysj.104.044024

Ramachander R, Bowie JU
SAM domains can utilize similar surfaces for the formation of polymers and closed oligomers.

J. Mol. Biol.. Oct 2004. 342(5):1353-8. 2004 PMID: 15364564
| PMC1304812 | 10.1016/j.jmb.2004.08.011

Kim S, Chamberlain AK, Bowie JU
A model of the closed form of the nicotinic acetylcholine receptor m2 channel pore.

Biophys. J.. Aug 2004. 87(2):792-9. 2004 PMID: 15298888
| PMC1304489 | 10.1529/biophysj.103.039396

Chamberlain AK, Bowie JU
Asymmetric amino acid compositions of transmembrane beta-strands.

Protein Sci.. Aug 2004. 13(8):2270-4. 2004 PMID: 15273317
| PMC2279826 | 10.1110/ps.04777304

Yohannan S, Yang D, Faham S, Boulting G, Whitelegge J, Bowie JU
Proline substitutions are not easily accommodated in a membrane protein.

J. Mol. Biol.. Jul 2004. 341(1):1-6. 2004 PMID: 15312757
| PMC2279826 | 10.1016/j.jmb.2004.06.025

Qiao F, Song H, Kim CA, Sawaya MR, Hunter JB, Gingery M, Rebay I, Courey AJ, Bowie JU
Derepression by depolymerization; structural insights into the regulation of Yan by Mae.

Cell. Jul 2004. 118(2):163-73. 2004 PMID: 15260987
| PMC2279826 | 10.1016/j.cell.2004.07.010

Chamberlain AK, Lee Y, Kim S, Bowie JU
Snorkeling preferences foster an amino acid composition bias in transmembrane helices.

J. Mol. Biol.. May 2004. 339(2):471-9. 2004 PMID: 15136048
| PMC2279826 | 10.1016/j.jmb.2004.03.072

Kim S, Chamberlain AK, Bowie JU
Membrane channel structure of Helicobacter pylori vacuolating toxin: role of multiple GXXXG motifs in cylindrical channels.

Proc. Natl. Acad. Sci. U.S.A.. Apr 2004. 101(16):5988-91. 2004 PMID: 15067113
| PMC395910 | 10.1073/pnas.0308694101

Melnyk RA, Kim S, Curran AR, Engelman DM, Bowie JU, Deber CM
The affinity of GXXXG motifs in transmembrane helix-helix interactions is modulated by long-range communication.

J. Biol. Chem.. Apr 2004. 279(16):16591-7. 2004 PMID: 14766751
| PMC395910 | 10.1074/jbc.M313936200

Yamaguchi S, Tuzi S, Bowie JU, Saitô H
Secondary structure and backbone dynamics of Escherichia coli diacylglycerol kinase, as revealed by site-directed solid-state 13C NMR.

Biochim. Biophys. Acta. Apr 2004. 1698(1):97-105. 2004 PMID: 15063319
| PMC395910 | 10.1016/j.bbapap.2003.10.013

Bowie JU
Membrane proteins: a new method enters the fold.

Proc. Natl. Acad. Sci. U.S.A.. Mar 2004. 101(12):3995-6. 2004 PMID: 15024105
| PMC384682 | 10.1073/pnas.0400671101

Yohannan S, Faham S, Yang D, Grosfeld D, Chamberlain AK, Bowie JU
A C alpha-H…O hydrogen bond in a membrane protein is not stabilizing.

J. Am. Chem. Soc.. Mar 2004. 126(8):2284-5. 2004 PMID: 14982414
| PMC384682 | 10.1021/ja0317574

Yohannan S, Faham S, Yang D, Whitelegge JP, Bowie JU
The evolution of transmembrane helix kinks and the structural diversity of G protein-coupled receptors.

Proc. Natl. Acad. Sci. U.S.A.. Jan 2004. 101(4):959-63. 2004 PMID: 14732697
| PMC327124 | 10.1073/pnas.0306077101

Faham S, Yang D, Bare E, Yohannan S, Whitelegge JP, Bowie JU
Side-chain contributions to membrane protein structure and stability.

J. Mol. Biol.. Jan 2004. 335(1):297-305. 2004 PMID: 14659758
| PMC327124

Salwinski L, Miller CS, Smith AJ, Pettit FK, Bowie JU, Eisenberg D
The Database of Interacting Proteins: 2004 update.

Nucleic Acids Res.. Jan 2004. 32(Database issue):D449-51. 2004 PMID: 14681454
| PMC308820 | 10.1093/nar/gkh086


Kim CA, Bowie JU
SAM domains: uniform structure, diversity of function.

Trends Biochem. Sci.. Dec 2003. 28(12):625-8. 2003 PMID: 14659692
| PMC308820 | 10.1016/j.tibs.2003.11.001

Rajasekaran SA, Anilkumar G, Oshima E, Bowie JU, Liu H, Heston W, Bander NH, Rajasekaran AK
A novel cytoplasmic tail MXXXL motif mediates the internalization of prostate-specific membrane antigen.

Mol. Biol. Cell. Dec 2003. 14(12):4835-45. 2003 PMID: 14528023
| PMC284788 | 10.1091/mbc.E02-11-0731

Kim S, Chamberlain AK, Bowie JU
A simple method for modeling transmembrane helix oligomers.

J. Mol. Biol.. Jun 2003. 329(4):831-40. 2003 PMID: 12787681
| PMC284788

Partridge AW, Melnyk RA, Yang D, Bowie JU, Deber CM
A transmembrane segment mimic derived from Escherichia coli diacylglycerol kinase inhibits protein activity.

J. Biol. Chem.. Jun 2003. 278(24):22056-60. 2003 PMID: 12686537
| PMC284788 | 10.1074/jbc.M210685200

Chamberlain AK, Faham S, Yohannan S, Bowie JU
Construction of helix-bundle membrane proteins.

Adv. Protein Chem.. 2003. 63:19-46. 2003 PMID: 12629965
| PMC284788


Ramachander R, Kim CA, Phillips ML, Mackereth CD, Thanos CD, McIntosh LP, Bowie JU
Oligomerization-dependent association of the SAM domains from Schizosaccharomyces pombe Byr2 and Ste4.

J. Biol. Chem.. Oct 2002. 277(42):39585-93. 2002 PMID: 12171939
| PMC284788 | 10.1074/jbc.M207273200

Chamberlain AK, Bowie JU
Evaluation of C-H cdots, three dots, centered O hydrogen bonds in native and misfolded proteins.

J. Mol. Biol.. Sep 2002. 322(3):497-503. 2002 PMID: 12225744
| PMC284788

Tran HH, Kim CA, Faham S, Siddall MC, Bowie JU
Native interface of the SAM domain polymer of TEL.

BMC Struct. Biol.. Aug 2002. 2:5. 2002 PMID: 12193272
| PMC126206

Kim CA, Gingery M, Pilpa RM, Bowie JU
The SAM domain of polyhomeotic forms a helical polymer.

Nat. Struct. Biol.. Jun 2002. 9(6):453-7. 2002 PMID: 11992127
| PMC126206 | 10.1038/nsb802

Faham S, Bowie JU
Bicelle crystallization: a new method for crystallizing membrane proteins yields a monomeric bacteriorhodopsin structure.

J. Mol. Biol.. Feb 2002. 316(1):1-6. 2002 PMID: 11829498
| PMC126206 | 10.1006/jmbi.2001.5295


Kim CA, Phillips ML, Kim W, Gingery M, Tran HH, Robinson MA, Faham S, Bowie JU
Polymerization of the SAM domain of TEL in leukemogenesis and transcriptional repression.

EMBO J.. Aug 2001. 20(15):4173-82. 2001 PMID: 11483520
| PMC149168 | 10.1093/emboj/20.15.4173

Bowie JU
Stabilizing membrane proteins.

Curr. Opin. Struct. Biol.. Aug 2001. 11(4):397-402. 2001 PMID: 11495729
| PMC149168

Zhou Y, Lau FW, Nauli S, Yang D, Bowie JU
Inactivation mechanism of the membrane protein diacylglycerol kinase in detergent solution.

Protein Sci.. Feb 2001. 10(2):378-83. 2001 PMID: 11266623
| PMC2373936 | 10.1110/ps.34201


Bowie JU
Are we destined to repeat history?

Curr. Opin. Struct. Biol.. Aug 2000. 10(4):435-7. 2000 PMID: 10981631
| PMC2373936

Nagy JK, Lau FW, Bowie JU, Sanders CR
Mapping the oligomeric interface of diacylglycerol kinase by engineered thiol cross-linking: homologous sites in the transmembrane domain.

Biochemistry. Apr 2000. 39(14):4154-64. 2000 PMID: 10747807
| PMC2373936

Zhou Y, Bowie JU
Building a thermostable membrane protein.

J. Biol. Chem.. Mar 2000. 275(10):6975-9. 2000 PMID: 10702260
| PMC2373936

Bowie JU
Understanding membrane protein structure by design.

Nat. Struct. Biol.. Feb 2000. 7(2):91-4. 2000 PMID: 10655604
| PMC2373936 | 10.1038/72454


Thanos CD, Faham S, Goodwill KE, Cascio D, Phillips M, Bowie JU
Monomeric structure of the human EphB2 sterile alpha motif domain.

J. Biol. Chem.. Dec 1999. 274(52):37301-6. 1999 PMID: 10601296
| PMC2373936

Bowie JU
Helix-bundle membrane protein fold templates.

Protein Sci.. Dec 1999. 8(12):2711-9. 1999 PMID: 10631987
| PMC2144225 | 10.1110/ps.8.12.2711

Thanos CD, Bowie JU
p53 Family members p63 and p73 are SAM domain-containing proteins.

Protein Sci.. Aug 1999. 8(8):1708-10. 1999 PMID: 10452616
| PMC2144426 | 10.1110/ps.8.8.1708

Lau FW, Nauli S, Zhou Y, Bowie JU
Changing single side-chains can greatly enhance the resistance of a membrane protein to irreversible inactivation.

J. Mol. Biol.. Jul 1999. 290(2):559-64. 1999 PMID: 10390353
| PMC2144426 | 10.1006/jmbi.1999.2905

Lau FW, Chen X, Bowie JU
Active sites of diacylglycerol kinase from Escherichia coli are shared between subunits.

Biochemistry. Apr 1999. 38(17):5521-7. 1999 PMID: 10220339
| PMC2144426 | 10.1021/bi982763t

Thanos CD, Goodwill KE, Bowie JU
Oligomeric structure of the human EphB2 receptor SAM domain.

Science. Feb 1999. 283(5403):833-6. 1999 PMID: 9933164
| PMC2144426

Pettit FK, Bowie JU
Protein surface roughness and small molecular binding sites.

J. Mol. Biol.. Jan 1999. 285(4):1377-82. 1999 PMID: 9917382
| PMC2144426 | 10.1006/jmbi.1998.2411


Zhou Y, Wen J, Bowie JU
A passive transmembrane helix.

Nat. Struct. Biol.. Dec 1997. 4(12):986-90. 1997 PMID: 9406546
| PMC2144426

Bowie JU
Helix packing angle preferences.

Nat. Struct. Biol.. Nov 1997. 4(11):915-7. 1997 PMID: 9360607
| PMC2144426

Bowie JU
Helix packing in membrane proteins.

J. Mol. Biol.. Oct 1997. 272(5):780-9. 1997 PMID: 9368657
| PMC2144426 | 10.1006/jmbi.1997.1279

Lau FW, Bowie JU
A method for assessing the stability of a membrane protein.

Biochemistry. May 1997. 36(19):5884-92. 1997 PMID: 9153430
| PMC2144426 | 10.1021/bi963095j

Eisenberg D, Lüthy R, Bowie JU
VERIFY3D: assessment of protein models with three-dimensional profiles.

Meth. Enzymol.. 1997. 277:396-404. 1997 PMID: 9379925
| PMC2144426


Thanos CD, Bowie JU
Developmentally expressed myosin heavy-chain kinase possesses a diacylglycerol kinase domain.

Protein Sci.. Apr 1996. 5(4):782-5. 1996 PMID: 8845769
| PMC2143377 | 10.1002/pro.5560050424

Wen J, Chen X, Bowie JU
Exploring the allowed sequence space of a membrane protein.

Nat. Struct. Biol.. Feb 1996. 3(2):141-8. 1996 PMID: 8564540
| PMC2143377

Fischer D, Rice D, Bowie JU, Eisenberg D
Assigning amino acid sequences to 3-dimensional protein folds.

FASEB J.. Jan 1996. 10(1):126-36. 1996 PMID: 8566533
| PMC2143377

Bowie JU, Zhang K, Wilmanns M, Eisenberg D
Three-dimensional profiles for measuring compatibility of amino acid sequence with three-dimensional structure.

Meth. Enzymol.. 1996. 266:598-616. 1996 PMID: 8743708
| PMC2143377


Bowie JU, Pakula AA, Simon MI
The three-dimensional structure of the aspartate receptor from Escherichia coli.

Acta Crystallogr. D Biol. Crystallogr.. Mar 1995. 51(Pt 2):145-54. 1995 PMID: 15299315
| PMC2143377 | 10.1107/S0907444994010498


Bowie JU, Eisenberg D
An evolutionary approach to folding small alpha-helical proteins that uses sequence information and an empirical guiding fitness function.

Proc. Natl. Acad. Sci. U.S.A.. May 1994. 91(10):4436-40. 1994 PMID: 8183927
| PMC43800


Lüthy R, Bowie JU, Eisenberg D
Assessment of protein models with three-dimensional profiles.

Nature. Mar 1992. 356(6364):83-5. 1992 PMID: 1538787
| PMC43800 | 10.1038/356083a0

Eisenberg D, Bowie JU, Lüthy R, Choe S
Three-dimensional profiles for analysing protein sequence-structure relationships.

Faraday Discuss.. 1992. (93):25-34. 1992 PMID: 1290936
| PMC43800


Bowie JU, Lüthy R, Eisenberg D
A method to identify protein sequences that fold into a known three-dimensional structure.

Science. Jul 1991. 253(5016):164-70. 1991 PMID: 1853201
| PMC43800

Mossing MC, Bowie JU, Sauer RT
A streptomycin selection for DNA-binding activity.

Meth. Enzymol.. 1991. 208:604-19. 1991 PMID: 1838136
| PMC43800

Reidhaar-Olson JF, Bowie JU, Breyer RM, Hu JC, Knight KL, Lim WA, Mossing MC, Parsell DA, Shoemaker KR, Sauer RT
Random mutagenesis of protein sequences using oligonucleotide cassettes.

Meth. Enzymol.. 1991. 208:564-86. 1991 PMID: 1779849
| PMC43800


Brown BM, Bowie JU, Sauer RT
Arc repressor is tetrameric when bound to operator DNA.

Biochemistry. Dec 1990. 29(51):11189-95. 1990 PMID: 2271706
| PMC43800

Bowie JU, Reidhaar-Olson JF, Lim WA, Sauer RT
Deciphering the message in protein sequences: tolerance to amino acid substitutions.

Science. Mar 1990. 247(4948):1306-10. 1990 PMID: 2315699
| PMC43800

Bowie JU, Sauer RT
TraY proteins of F and related episomes are members of the Arc and Mnt repressor family.

J. Mol. Biol.. Jan 1990. 211(1):5-6. 1990 PMID: 2299672
| PMC43800 | 10.1016/0022-2836(90)90004-6

Bowie JU, Clarke ND, Pabo CO, Sauer RT
Identification of protein folds: matching hydrophobicity patterns of sequence sets with solvent accessibility patterns of known structures.

Proteins. 1990. 7(3):257-64. 1990 PMID: 2163535
| PMC43800 | 10.1002/prot.340070307


Zagorski MG, Bowie JU, Vershon AK, Sauer RT, Patel DJ
NMR studies of Arc repressor mutants: proton assignments, secondary structure, and long-range contacts for the thermostable proline-8—-leucine variant of Arc.

Biochemistry. Dec 1989. 28(25):9813-25. 1989 PMID: 2611267
| PMC43800

Bowie JU, Sauer RT
Equilibrium dissociation and unfolding of the Arc repressor dimer.

Biochemistry. Sep 1989. 28(18):7139-43. 1989 PMID: 2819054
| PMC43800

Bowie JU, Sauer RT
Identification of C-terminal extensions that protect proteins from intracellular proteolysis.

J. Biol. Chem.. May 1989. 264(13):7596-602. 1989 PMID: 2651443
| PMC43800

Bowie JU, Sauer RT
Identifying determinants of folding and activity for a protein of unknown structure.

Proc. Natl. Acad. Sci. U.S.A.. Apr 1989. 86(7):2152-6. 1989 PMID: 2928323
| PMC286869

Knight KL, Bowie JU, Vershon AK, Kelley RD, Sauer RT
The Arc and Mnt repressors. A new class of sequence-specific DNA-binding protein.

J. Biol. Chem.. Mar 1989. 264(7):3639-42. 1989 PMID: 2917965
| PMC286869


Vershon AK, Bowie JU, Karplus TM, Sauer RT
Isolation and analysis of arc repressor mutants: evidence for an unusual mechanism of DNA binding.

Proteins. Dec 1986. 1(4):302-11. 1986 PMID: 3449859
| PMC286869 | 10.1002/prot.340010404


Wright CD, Bowie JU, Gray GR, Nelson RD
Candidacidal activity of myeloperoxidase: mechanisms of inhibitory influence of soluble cell wall mannan.

Infect. Immun.. Oct 1983. 42(1):76-80. 1983 PMID: 6311754
| PMC264526