A YidC-like Protein in the Archaeal Plasma Membrane

Borowska, Marta T.; Dominik, Pawel K.; Anghel, S. Andrei; Kossiakoff, Anthony A.; Keenan, Robert J.

doi:10.1016/j.str.2015.06.025

A YidC-like Protein in the Archaeal Plasma Membrane

Journal Article · Tue Sep 01 00:00:00 EDT 2015 · Structure

DOI:https://doi.org/10.1016/j.str.2015.06.025· OSTI ID:1337420

Borowska, Marta T.; Dominik, Pawel K.; Anghel, S. Andrei; Kossiakoff, Anthony A.; Keenan, Robert J.

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Research Organization:: Argonne National Laboratory (ANL), Argonne, IL (United States)

Sponsoring Organization:: NIH; USDOE Office of Science (SC), Basic Energy Sciences (BES) (SC-22). Scientific User Facilities Division

Grant/Contract Number:: AC02-06CH11357

OSTI ID:: 1337420

Alternate ID(s):: OSTI ID: 1250987
OSTI ID: 1259889

Journal Information:: Structure, Journal Name: Structure Journal Issue: 9 Vol. 23; ISSN 0969-2126

Publisher:: ElsevierCopyright Statement

Country of Publication:: United Kingdom

Language:: English

References (66)

T-coffee: a novel method for fast and accurate multiple sequence alignment 1 1Edited by J. Thornton Notredame, Cédric; Higgins, Desmond G.; Heringa, Jaap Journal of Molecular Biology, Vol. 302, Issue 1 https://doi.org/10.1006/jmbi.2000.4042	journal	September 2000
YidC/Oxa1p/Alb3: evolutionarily conserved mediators of membrane protein assembly Luirink, Joen; Samuelsson, Tore; de Gier, Jan-Willem FEBS Letters, Vol. 501, Issue 1 https://doi.org/10.1016/S0014-5793(01)02616-3	journal	July 2001
Transformation of yeast by lithium acetate/single-stranded carrier DNA/polyethylene glycol method Daniel Gietz, R.; Woods, Robin A. Guide to Yeast Genetics and Molecular and Cell Biology - Part B https://doi.org/10.1016/S0076-6879(02)50957-5	book	January 2002
Reconstitution of Membrane Proteins in Phospholipid Bilayer Nanodiscs Ritchie, T. K.; Grinkova, Y. V.; Bayburt, T. H. Methods in Enzymology https://doi.org/10.1016/S0076-6879(09)64011-8	book	January 2009
Phage Display Selections for Affinity Reagents to Membrane Proteins in Nanodiscs Dominik, Pawel K.; Kossiakoff, Anthony A. Methods in Enzymology https://doi.org/10.1016/bs.mie.2014.12.032	book	January 2015
The membrane insertase YidC Dalbey, Ross E.; Kuhn, Andreas; Zhu, Lu Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, Vol. 1843, Issue 8 https://doi.org/10.1016/j.bbamcr.2013.12.022	journal	August 2014
Comparative genomic analysis of evolutionarily conserved but functionally uncharacterized membrane proteins in archaea: Prediction of novel components of secretion, membrane remodeling and glycosylation systems Makarova, Kira S.; Galperin, Michael Y.; Koonin, Eugene V. Biochimie, Vol. 118 https://doi.org/10.1016/j.biochi.2015.01.004	journal	November 2015
The GET Complex Mediates Insertion of Tail-Anchored Proteins into the ER Membrane Schuldiner, Maya; Metz, Jutta; Schmid, Volker Cell, Vol. 134, Issue 4 https://doi.org/10.1016/j.cell.2008.06.025	journal	August 2008
F ₁ F ₀ ATP synthase subunit c is targeted by the SRP to YidC in the E. coli inner membrane van Bloois, Edwin; Jan Haan, Gert; de Gier, Jan-Willem FEBS Letters, Vol. 576, Issue 1-2 https://doi.org/10.1016/j.febslet.2004.08.069	journal	September 2004
Elucidating the Native Architecture of the YidC: Ribosome Complex Kedrov, Alexej; Sustarsic, Marko; de Keyzer, Jeanine Journal of Molecular Biology, Vol. 425, Issue 22 https://doi.org/10.1016/j.jmb.2013.07.042	journal	November 2013
Generation of ribosome nascent chain complexes for structural and functional studies Schaffitzel, Christiane; Ban, Nenad Journal of Structural Biology, Vol. 158, Issue 3 https://doi.org/10.1016/j.jsb.2007.01.005	journal	June 2007
The Mechanism of Tail-Anchored Protein Insertion into the ER Membrane Wang, Fei; Whynot, Andrew; Tung, Matthew Molecular Cell, Vol. 43, Issue 5 https://doi.org/10.1016/j.molcel.2011.07.020	journal	September 2011
Protein production by auto-induction in high-density shaking cultures Studier, F. William Protein Expression and Purification, Vol. 41, Issue 1, p. 207-234 https://doi.org/10.1016/j.pep.2005.01.016	journal	May 2005
The complex process of GETting tail-anchored membrane proteins to the ER Chartron, Justin W.; Clemons, William M.; Suloway, Christian JM Current Opinion in Structural Biology, Vol. 22, Issue 2 https://doi.org/10.1016/j.sbi.2012.03.001	journal	April 2012
A portrait of the GET pathway as a surprisingly complicated young man Denic, Vladimir Trends in Biochemical Sciences, Vol. 37, Issue 10 https://doi.org/10.1016/j.tibs.2012.07.004	journal	October 2012
Model for signal sequence recognition from amino-acid sequence of 54K subunit of signal recognition particle Bernstein, Harris D.; Poritz, Mark A.; Strub, Katharina Nature, Vol. 340, Issue 6233 https://doi.org/10.1038/340482a0	journal	August 1989
YidC mediates membrane protein insertion in bacteria Samuelson, James C.; Chen, Minyong; Jiang, Fenglei Nature, Vol. 406, Issue 6796 https://doi.org/10.1038/35020586	journal	August 2000
Tail-anchor targeting by a Get3 tetramer: the structure of an archaeal homologue: A tetrameric model for Get3 tail-anchor targeting Suloway, Christian JM; Rome, Michael E.; Clemons, William M. The EMBO Journal, Vol. 31, Issue 3 https://doi.org/10.1038/emboj.2011.433	journal	November 2011
Recognition of a signal peptide by the signal recognition particle Janda, Claudia Y.; Li, Jade; Oubridge, Chris Nature, Vol. 465, Issue 7297 https://doi.org/10.1038/nature08870	journal	April 2010
The mechanism of membrane-associated steps in tail-anchored protein insertion Mariappan, Malaiyalam; Mateja, Agnieszka; Dobosz, Malgorzata Nature, Vol. 477, Issue 7362 https://doi.org/10.1038/nature10362	journal	August 2011
Structural basis of Sec-independent membrane protein insertion by YidC Kumazaki, Kaoru; Chiba, Shinobu; Takemoto, Mizuki Nature, Vol. 509, Issue 7501 https://doi.org/10.1038/nature13167	journal	April 2014
Enzymatic assembly of DNA molecules up to several hundred kilobases Gibson, Daniel G.; Young, Lei; Chuang, Ray-Yuan Nature Methods, Vol. 6, Issue 5, p. 343-345 https://doi.org/10.1038/nmeth.1318	journal	April 2009
Tail-anchored membrane protein insertion into the endoplasmic reticulum Hegde, Ramanujan S.; Keenan, Robert J. Nature Reviews Molecular Cell Biology, Vol. 12, Issue 12 https://doi.org/10.1038/nrm3226	journal	November 2011
Structural basis of signal-sequence recognition by the signal recognition particle Hainzl, Tobias; Huang, Shenghua; Meriläinen, Gitte Nature Structural & Molecular Biology, Vol. 18, Issue 3 https://doi.org/10.1038/nsmb.1994	journal	February 2011
Allosteric control of ligand-binding affinity using engineered conformation-specific effector proteins Rizk, Shahir S.; Paduch, Marcin; Heithaus, John H. Nature Structural & Molecular Biology, Vol. 18, Issue 4 https://doi.org/10.1038/nsmb.2002	journal	March 2011
Crystal structure of Escherichia coli YidC, a membrane protein chaperone and insertase Kumazaki, Kaoru; Kishimoto, Toshiki; Furukawa, Arata Scientific Reports, Vol. 4, Issue 1 https://doi.org/10.1038/srep07299	journal	December 2014
The thylakoid membrane protein ALB3 associates with the cpSecY-translocase in Arabidopsis thaliana Klostermann, Eva; DROSTE gen. HELLING, Imke; Carde, Jean-Pierre Biochemical Journal, Vol. 368, Issue 3 https://doi.org/10.1042/bj20021291	journal	December 2002
Toward the structural genomics of complexes: Crystal structure of a PE/PPE protein complex from Mycobacterium tuberculosis Strong, M.; Sawaya, M. R.; Wang, S. Proceedings of the National Academy of Sciences, Vol. 103, Issue 21 https://doi.org/10.1073/pnas.0602606103	journal	May 2006
Addition of a photocrosslinking amino acid to the genetic code of Escherichia coli Chin, J. W.; Martin, A. B.; King, D. S. Proceedings of the National Academy of Sciences, Vol. 99, Issue 17, p. 11020-11024 https://doi.org/10.1073/pnas.172226299	journal	August 2002
Membrane Topology of the 60-kDa Oxa1p Homologue fromEscherichia coli Sääf, Annika; Monné, Magnus; de Gier, Jan-Willem Journal of Biological Chemistry, Vol. 273, Issue 46 https://doi.org/10.1074/jbc.273.46.30415	journal	November 1998
Dynamic Disulfide Scanning of the Membrane-inserting Pf3 Coat Protein Reveals Multiple YidC Substrate Contacts Klenner, Christian; Kuhn, Andreas Journal of Biological Chemistry, Vol. 287, Issue 6 https://doi.org/10.1074/jbc.M111.307223	journal	February 2012
The Role of the Strictly Conserved Positively Charged Residue Differs among the Gram-positive, Gram-negative, and Chloroplast YidC Homologs Chen, Yuanyuan; Soman, Raunak; Shanmugam, Sri Karthika Journal of Biological Chemistry, Vol. 289, Issue 51 https://doi.org/10.1074/jbc.M114.595082	journal	December 2014
Evolution of Mitochondrial Oxa Proteins from Bacterial YidC Preuss, Marc; Ott, Martin; Funes, Soledad Journal of Biological Chemistry, Vol. 280, Issue 13 https://doi.org/10.1074/jbc.M414093200	journal	April 2005
The Sec-independent Function of Escherichia coli YidC Is Evolutionary-conserved and Essential van Bloois, Edwin; Nagamori, Shushi; Koningstein, Gregory Journal of Biological Chemistry, Vol. 280, Issue 13 https://doi.org/10.1074/jbc.M414094200	journal	April 2005
The Conserved Third Transmembrane Segment of YidC Contacts Nascent Escherichia coli Inner Membrane Proteins Yu, Zhong; Koningstein, Gregory; Pop, Ana Journal of Biological Chemistry, Vol. 283, Issue 50 https://doi.org/10.1074/jbc.M804344200	journal	December 2008
Role of YidC in folding of polytopic membrane proteins Nagamori, Shushi; Smirnova, Irina N.; Kaback, H. Ronald Journal of Cell Biology, Vol. 165, Issue 1 https://doi.org/10.1083/jcb.200402067	journal	April 2004
F1F0 ATP synthase subunit c is a substrate of the novel YidC pathway for membrane protein biogenesis van der Laan, Martin; Bechtluft, Philipp; Kol, Stef Journal of Cell Biology, Vol. 165, Issue 2 https://doi.org/10.1083/jcb.200402100	journal	April 2004
Oxa1 Directly Interacts with Atp9 and Mediates Its Assembly into the Mitochondrial F ₁ F _o -ATP Synthase Complex Jia, Lixia; Dienhart, Mary K.; Stuart, Rosemary A. Molecular Biology of the Cell, Vol. 18, Issue 5 https://doi.org/10.1091/mbc.e06-10-0925	journal	May 2007
DaliLite workbench for protein structure comparison Holm, L.; Park, J. Bioinformatics, Vol. 16, Issue 6 https://doi.org/10.1093/bioinformatics/16.6.566	journal	June 2000
ConSurf: Identification of Functional Regions in Proteins by Surface-Mapping of Phylogenetic Information Glaser, F.; Pupko, T.; Paz, I. Bioinformatics, Vol. 19, Issue 1 https://doi.org/10.1093/bioinformatics/19.1.163	journal	January 2003
trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses Capella-Gutierrez, S.; Silla-Martinez, J. M.; Gabaldon, T. Bioinformatics, Vol. 25, Issue 15 https://doi.org/10.1093/bioinformatics/btp348	journal	June 2009
ProtTest 3: fast selection of best-fit models of protein evolution Darriba, Diego; Taboada, Guillermo L.; Doallo, Ramón Bioinformatics, Vol. 27, Issue 8 https://doi.org/10.1093/bioinformatics/btr088	journal	February 2011
Sec‐dependent membrane protein insertion: sequential interaction of nascent FtsQ with SecY and YidC Urbanus, Malene L.; Scotti, Pier A.; Fröderberg, Linda EMBO reports, Vol. 2, Issue 6 https://doi.org/10.1093/embo-reports/kve108	journal	June 2001
YidC, the Escherichia coli homologue of mitochondrial Oxa1p, is a component of the Sec translocase Scotti, Pier A.; Urbanus, Malene L.; Brunner, Josef The EMBO Journal, Vol. 19, Issue 4 https://doi.org/10.1093/emboj/19.4.542	journal	February 2000
Ribosome binding to the Oxa1 complex facilitates co-translational protein insertion in mitochondria Szyrach, G. The EMBO Journal, Vol. 22, Issue 24 https://doi.org/10.1093/emboj/cdg623	journal	December 2003
Yeast Oxa1 interacts with mitochondrial ribosomes: the importance of the C-terminal region of Oxa1 Jia, L. The EMBO Journal, Vol. 22, Issue 24 https://doi.org/10.1093/emboj/cdg624	journal	December 2003
New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0 Guindon, Stéphane; Dufayard, Jean-François; Lefort, Vincent Systematic Biology, Vol. 59, Issue 3 https://doi.org/10.1093/sysbio/syq010	journal	March 2010
Phaser crystallographic software McCoy, Airlie J.; Grosse-Kunstleve, Ralf W.; Adams, Paul D. Journal of Applied Crystallography, Vol. 40, Issue 4 https://doi.org/10.1107/S0021889807021206	journal	July 2007
xia2 : an expert system for macromolecular crystallography data reduction Winter, G. Journal of Applied Crystallography, Vol. 43, Issue 1 https://doi.org/10.1107/S0021889809045701	journal	December 2009
XDS Kabsch, Wolfgang Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2 https://doi.org/10.1107/S0907444909047337	journal	January 2010
PHENIX: a comprehensive Python-based system for macromolecular structure solution Adams, Paul D.; Afonine, Pavel V.; Bunkóczi, Gábor Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2, p. 213-221 https://doi.org/10.1107/S0907444909052925	journal	January 2010
Features and development of Coot Emsley, P.; Lohkamp, B.; Scott, W. G. Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 4 https://doi.org/10.1107/S0907444910007493	journal	March 2010
3D domain swapping: As domains continue to swap Liu, Yanshun; Eisenberg, David Protein Science, Vol. 11, Issue 6 https://doi.org/10.1110/ps.0201402	journal	June 2002
Phylogenetic and structural analyses of the oxa1 family of protein translocases Yen, Ming-Ren; Harley, Kevin T.; Tseng, Yi-Hsiung FEMS Microbiology Letters, Vol. 204, Issue 2 https://doi.org/10.1111/j.1574-6968.2001.tb10889.x	journal	November 2001
Remote Origins of Tail-Anchored Proteins Borgese, Nica; Righi, Marco Traffic, Vol. 11, Issue 7 https://doi.org/10.1111/j.1600-0854.2010.01068.x	journal	April 2010
A Conserved Archaeal Pathway for Tail-Anchored Membrane Protein Insertion Sherrill, John; Mariappan, Malaiyalam; Dominik, Pawel Traffic, Vol. 12, Issue 9 https://doi.org/10.1111/j.1600-0854.2011.01229.x	journal	July 2011
The C-terminal regions of YidC from Rhodopirellula baltica and Oceanicaulis alexandrii bind to ribosomes and partially substitute for SRP receptor function in Escherichia coli: Function of C-terminal YidC regions Seitl, Ines; Wickles, Stephan; Beckmann, Roland Molecular Microbiology, Vol. 91, Issue 2 https://doi.org/10.1111/mmi.12465	journal	December 2013
Structure of the Get3 targeting factor in complex with its membrane protein cargo Mateja, A.; Paduch, M.; Chang, H. -Y. Science, Vol. 347, Issue 6226 https://doi.org/10.1126/science.1261671	journal	March 2015
Predicting coiled coils from protein sequences Lupas, A.; Van Dyke, M.; Stock, J. Science, Vol. 252, Issue 5009, p. 1162-1164 https://doi.org/10.1126/science.252.5009.1162	journal	May 1991
Interaction of Streptococcus mutans YidC1 and YidC2 with Translating and Nontranslating Ribosomes Wu, Zht Cheng; de Keyzer, Jeanine; Berrelkamp-Lahpor, Greetje A. Journal of Bacteriology, Vol. 195, Issue 19 https://doi.org/10.1128/JB.00792-13	journal	October 2013
Signal Recognition Particle: An Essential Protein-Targeting Machine Akopian, David; Shen, Kuang; Zhang, Xin Annual Review of Biochemistry, Vol. 82, Issue 1 https://doi.org/10.1146/annurev-biochem-072711-164732	journal	June 2013
Membrane Protein Insertion at the Endoplasmic Reticulum Shao, Sichen; Hegde, Ramanujan S. Annual Review of Cell and Developmental Biology, Vol. 27, Issue 1 https://doi.org/10.1146/annurev-cellbio-092910-154125	journal	November 2011
The evolution of YidC/Oxa/Alb3 family in the three domains of life: a phylogenomic analysis Zhang, Yu-Juan; Tian, Hai-Feng; Wen, Jian-Fan BMC Evolutionary Biology, Vol. 9, Issue 1 https://doi.org/10.1186/1471-2148-9-137	journal	January 2009
WRB is the receptor for TRC40/Asna1-mediated insertion of tail-anchored proteins into the ER membrane Vilardi, Fabio; Lorenz, Holger; Dobberstein, Bernhard Journal of Cell Science, Vol. 124, Issue 8 https://doi.org/10.1242/jcs.084277	journal	April 2011
T Cell Receptor-Like Recognition of Tumor In Vivo by Synthetic Antibody Fragment Miller, Keith R.; Koide, Akiko; Leung, Brenda PLoS ONE, Vol. 7, Issue 8 https://doi.org/10.1371/journal.pone.0043746	journal	August 2012
The YidC/Oxa1/Alb3 protein family: common principles and distinct features Saller, Manfred J.; Wu, Zht Cheng; de Keyzer, Jeanine Biological Chemistry, Vol. 393, Issue 11 https://doi.org/10.1515/hsz-2012-0199	journal	November 2012

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