The interactome of intact mitochondria by cross-linking mass spectrometry provides evidence for coexisting respiratory supercomplexes
Mitochondria exert an immense amount of cytophysiological functions, but the structural basis of most of these processes is still poorly understood. Here we use cross-linking mass spectrometry to probe the organization of proteins in native mouse heart mitochondria. Our approach provides the largest...
Saved in:
| Published in: | Molecular & cellular proteomics Vol. 17; no. 2; pp. 216 - 232 |
|---|---|
| Main Authors: | , , , , |
| Format: | Journal Article |
| Language: | English |
| Published: |
United States
Elsevier Inc
01-02-2018
American Society for Biochemistry and Molecular Biology The American Society for Biochemistry and Molecular Biology |
| Subjects: | |
| Online Access: | Get full text |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| Abstract | Mitochondria exert an immense amount of cytophysiological functions, but the structural basis of most of these processes is still poorly understood. Here we use cross-linking mass spectrometry to probe the organization of proteins in native mouse heart mitochondria. Our approach provides the largest survey of mitochondrial protein interactions reported so far. In total, we identify 3,322 unique residue-to-residue contacts involving half of the mitochondrial proteome detected by bottom-up proteomics. The obtained mitochondrial protein interactome gives insights in the architecture and submitochondrial localization of defined protein assemblies, and reveals the mitochondrial localization of four proteins not yet included in the MitoCarta database. As one of the highlights, we show that the oxidative phosphorylation complexes I-V exist in close spatial proximity, providing direct evidence for supercomplex assembly in intact mitochondria. The specificity of these contacts is demonstrated by comparative analysis of mitochondria after high salt treatment, which disrupts the native supercomplexes and substantially changes the mitochondrial interactome. |
|---|---|
| AbstractList | Mitochondria exert an immense amount of cytophysiological functions, but the structural basis of most of these processes is still poorly understood. Here we use cross-linking mass spectrometry to probe the organization of proteins in native mouse heart mitochondria. Our approach provides the largest survey of mitochondrial protein interactions reported so far. In total, we identify 3,322 unique residue-to-residue contacts involving half of the mitochondrial proteome detected by bottom-up proteomics. The obtained mitochondrial protein interactome gives insights in the architecture and submitochondrial localization of defined protein assemblies, and reveals the mitochondrial localization of four proteins not yet included in the MitoCarta database. As one of the highlights, we show that the oxidative phosphorylation complexes I-V exist in close spatial proximity, providing direct evidence for supercomplex assembly in intact mitochondria. The specificity of these contacts is demonstrated by comparative analysis of mitochondria after high salt treatment, which disrupts the native supercomplexes and substantially changes the mitochondrial interactome. |
| Author | Balaban, Robert S. Heck, Albert J.R. Lössl, Philip Liu, Fan Rabbitts, Beverley M. |
| Author_xml | – sequence: 1 givenname: Fan surname: Liu fullname: Liu, Fan organization: From the Biomolecular Mass Spectrometry and Proteomics. Bijvoet Centre for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, University of Utrecht, Padualaan 8, 3584 CH, Utrecht, The Netherlands – sequence: 2 givenname: Philip surname: Lössl fullname: Lössl, Philip organization: From the Biomolecular Mass Spectrometry and Proteomics. Bijvoet Centre for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, University of Utrecht, Padualaan 8, 3584 CH, Utrecht, The Netherlands – sequence: 3 givenname: Beverley M. surname: Rabbitts fullname: Rabbitts, Beverley M. organization: Laboratory of Cardiac Energetics, Systems Biology Center, National Heart, Lung, and Blood Institute, National Institutes of Health, Bethesda, MD – sequence: 4 givenname: Robert S. surname: Balaban fullname: Balaban, Robert S. email: balabanr@nhlbi.nih.gov organization: Laboratory of Cardiac Energetics, Systems Biology Center, National Heart, Lung, and Blood Institute, National Institutes of Health, Bethesda, MD – sequence: 5 givenname: Albert J.R. surname: Heck fullname: Heck, Albert J.R. email: a.j.r.heck@uu.nl organization: From the Biomolecular Mass Spectrometry and Proteomics. Bijvoet Centre for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, University of Utrecht, Padualaan 8, 3584 CH, Utrecht, The Netherlands |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/29222160$$D View this record in MEDLINE/PubMed |
| BookMark | eNp1UU1v1DAUtFARbRfunJAlzru1nThOOCBVVfmQKiGhcrYc-6XrsrHDs3fV_QH8b5xuWZUDp-exZ8ZPM-fkJMQAhLzlbMWZqi9GO62-X3KuVoyxWrEX5IzLSi67uq1PjmfVnJLzlO4ZE4wr-Yqcik4IwRt2Rn7froH6kAGNzXEEGocZFkBHn6Ndx-DQG9rvqcWY0nLjw08f7uhoUqJpApuxyDLu6YRx5x0kCvMIFugQkdoIDz7lWYKQJo8mx0JO2wnQxnHawAOk1-TlYDYJ3jzNBfnx6fr26svy5tvnr1eXN0sra56XQ69so1zXK8ONNMzU5Vo1gxQNd6at67YaLIhKcd41tgDZycpx6ZhwPTeiWpCPB99p24_gLISMZqMn9KPBvY7G639fgl_ru7jTUhWnti0G758MMP7aQsr6Pm4xlJ21YKzpmOhK6AvCDqzHyBCG4w-c6bk4XYrTj8XpQ3FF8u75ZkfB36YK4cOBACWfnQfUyfo5ZeexlKBd9P93_wOnn666 |
| CitedBy_id | crossref_primary_10_1073_pnas_2007827117 crossref_primary_10_1016_j_jchromb_2018_10_022 crossref_primary_10_1021_acs_analchem_0c01273 crossref_primary_10_1038_s41594_018_0147_0 crossref_primary_10_1089_omi_2022_0137 crossref_primary_10_1098_rsob_220363 crossref_primary_10_1021_acs_jproteome_9b00541 crossref_primary_10_1074_mcp_RA119_001839 crossref_primary_10_1089_ars_2019_8006 crossref_primary_10_1016_j_hlife_2024_03_003 crossref_primary_10_1039_C8OB00329G crossref_primary_10_1016_j_str_2022_02_004 crossref_primary_10_1021_acs_jproteome_3c00832 crossref_primary_10_1016_j_redox_2020_101435 crossref_primary_10_1073_pnas_2110996118 crossref_primary_10_1074_mcp_TIR119_001847 crossref_primary_10_3390_biology9120479 crossref_primary_10_1016_j_redox_2022_102403 crossref_primary_10_1021_acs_jproteome_1c00269 crossref_primary_10_1186_s12964_021_00778_z crossref_primary_10_1074_mcp_RA120_002028 crossref_primary_10_1016_j_sbi_2023_102648 crossref_primary_10_1093_jb_mvz090 crossref_primary_10_3390_biomedicines9101457 crossref_primary_10_1016_j_ceca_2021_102364 crossref_primary_10_1021_acs_jproteome_0c00957 crossref_primary_10_1134_S1061934821140094 crossref_primary_10_7554_eLife_58573 crossref_primary_10_1038_s41592_020_0959_9 crossref_primary_10_1016_j_ijms_2019_116184 crossref_primary_10_1073_pnas_2106950118 crossref_primary_10_1021_acs_chemrev_1c00223 crossref_primary_10_1016_j_cbpa_2018_08_006 crossref_primary_10_1016_j_celrep_2022_111103 crossref_primary_10_1371_journal_pbio_3001839 crossref_primary_10_1016_j_ymeth_2019_03_009 crossref_primary_10_1021_acs_jproteome_9b00085 crossref_primary_10_1021_acs_analchem_0c04043 crossref_primary_10_1021_acs_analchem_9b03975 crossref_primary_10_3389_fphys_2018_00238 crossref_primary_10_1016_j_jmb_2018_07_003 crossref_primary_10_1016_j_isci_2019_08_057 crossref_primary_10_1016_j_jprot_2020_103754 crossref_primary_10_1016_j_sbi_2019_10_006 crossref_primary_10_15252_embj_2020106174 crossref_primary_10_1038_s41467_023_39485_3 crossref_primary_10_1016_j_molimm_2021_05_010 crossref_primary_10_3390_life10110296 crossref_primary_10_1016_j_jprot_2020_103990 crossref_primary_10_1073_pnas_1915542117 crossref_primary_10_1021_acs_analchem_9b02372 crossref_primary_10_1042_BST20190966 crossref_primary_10_1021_acs_analchem_1c01317 crossref_primary_10_1021_acs_chemrev_9b00815 crossref_primary_10_1021_acschembio_0c00135 crossref_primary_10_1007_s00109_020_02004_8 crossref_primary_10_1021_acs_biochem_0c00268 crossref_primary_10_1016_j_bbapap_2021_140655 crossref_primary_10_1016_j_sbi_2023_102599 crossref_primary_10_1016_j_mcpro_2023_100657 crossref_primary_10_1016_j_trac_2023_117063 crossref_primary_10_1038_s41467_024_47569_x crossref_primary_10_1021_acs_jproteome_9b00189 crossref_primary_10_1042_EBC20220168 crossref_primary_10_1073_pnas_2219418120 crossref_primary_10_1083_jcb_202005193 crossref_primary_10_1038_s41580_023_00650_7 crossref_primary_10_1016_j_aca_2021_338838 crossref_primary_10_1016_j_str_2021_11_007 crossref_primary_10_1155_2018_1435934 crossref_primary_10_1016_j_celrep_2021_109180 crossref_primary_10_1002_pro_4045 crossref_primary_10_1016_j_cell_2020_12_021 crossref_primary_10_3390_biom10081107 crossref_primary_10_1038_s41477_022_01165_3 crossref_primary_10_1038_s41598_018_36040_9 crossref_primary_10_1126_sciadv_aax5783 crossref_primary_10_3389_fendo_2020_00600 crossref_primary_10_1039_D0MO00181C crossref_primary_10_1016_j_copbio_2019_12_009 crossref_primary_10_1002_pmic_202100145 crossref_primary_10_1016_j_cell_2024_04_037 crossref_primary_10_1016_j_molp_2023_03_013 crossref_primary_10_1242_jcs_260986 crossref_primary_10_1021_acs_chemrev_1c00786 crossref_primary_10_1152_physrev_00026_2023 crossref_primary_10_1038_s41564_023_01433_8 crossref_primary_10_1152_ajpregu_00069_2022 crossref_primary_10_3389_fgene_2022_994501 crossref_primary_10_1007_s00018_021_03856_0 crossref_primary_10_1038_s41596_019_0181_3 crossref_primary_10_1021_jacsau_3c00712 crossref_primary_10_1021_jasms_9b00085 crossref_primary_10_1016_j_celrep_2024_113772 crossref_primary_10_1016_j_jbc_2024_105626 crossref_primary_10_1016_S0140_6736_18_30727_X crossref_primary_10_3390_biom11030382 crossref_primary_10_1515_hsz_2018_0445 crossref_primary_10_1016_j_cmet_2023_07_015 crossref_primary_10_3389_fcell_2021_796128 crossref_primary_10_1007_s12192_020_01080_6 crossref_primary_10_1038_s44318_024_00097_2 crossref_primary_10_1093_bioinformatics_btae146 crossref_primary_10_1073_pnas_2103554118 crossref_primary_10_7554_eLife_67624 crossref_primary_10_1631_jzus_B2000356 |
| Cites_doi | 10.1038/emboj.2008.35 10.1074/jbc.M111.252544 10.1038/nature13909 10.1091/mbc.e14-07-1198 10.1016/j.cell.2014.10.050 10.1093/nar/gkp914 10.1016/j.bbabio.2009.06.009 10.1152/ajpcell.1992.262.4.C1047 10.1074/mcp.O114.042259 10.1152/ajpregu.00596.2011 10.1021/pr500813f 10.1126/science.1230593 10.1016/j.jmb.2016.11.032 10.1038/nbt793 10.1074/jbc.272.21.13829 10.1016/j.cell.2008.06.016 10.1007/s00216-016-9941-x 10.1126/science.aaa3872 10.1002/pmic.200800632 10.1016/j.bbamem.2010.07.004 10.1128/MCB.19.3.2220 10.1093/emboj/19.8.1777 10.1038/nature19774 10.1091/mbc.e04-08-0697 10.1002/bit.10342 10.1073/pnas.1617220114 10.1038/nature10098 10.1126/science.1251110 10.1016/S0021-9258(19)57191-5 10.1016/j.cell.2015.06.043 10.1016/j.bbabio.2008.10.010 10.1007/s00418-005-0752-y 10.1038/nmeth.3179 10.1016/j.molcel.2016.06.033 10.1038/nprot.2016.136 10.1093/nar/gkv1145 10.1016/S0021-9258(17)41044-1 10.1093/bioinformatics/btv333 10.7554/eLife.21290 10.1038/nature19794 10.1038/nbt.3683 10.7554/eLife.10180 10.1021/bi972011j 10.1016/j.bbamem.2010.01.005 10.1002/pro.2458 10.1074/jbc.C200703200 10.1101/gad.229724.113 10.1074/mcp.M112.024497 10.1016/j.bbabio.2006.05.006 10.1016/j.cell.2016.11.012 10.1152/ajpcell.00108.2006 10.1016/j.jneumeth.2012.12.005 10.1038/nmeth.3603 10.1074/jbc.M110.177717 10.1016/j.bbabio.2016.01.013 10.5483/BMBRep.2010.43.1.057 10.1016/j.cmet.2012.07.015 10.1074/mcp.M113.031591 10.1016/S0021-9258(19)85153-0 10.1016/j.cell.2015.09.053 10.1002/0471140864.ps1923s74 10.1101/gr.1239303 10.1038/ncomms15473 10.1016/j.molcel.2009.12.040 10.1083/jcb.201510108 10.1074/jbc.M700198200 10.1074/mcp.M114.042630 10.1038/nature06523 10.1042/BST0360864 10.1074/jbc.273.9.4872 10.1074/jbc.M207765200 10.1002/pmic.201600123 10.1038/nature19095 10.1016/j.molcel.2014.06.003 10.1073/pnas.1525430113 10.1016/j.cell.2017.07.050 10.1007/978-1-4939-6747-6_10 10.1021/bi3015983 10.1073/pnas.1103621108 10.1093/nar/gkv1003 10.1515/bchm2.1983.364.2.835 10.1093/nar/gkn201 10.1016/j.ceb.2016.03.013 10.1016/j.sbi.2015.10.006 10.1161/CIRCRESAHA.108.189050 10.1016/j.tcb.2016.09.004 10.1016/j.tibs.2015.10.008 |
| ContentType | Journal Article |
| Copyright | 2018 © 2018 by The American Society for Biochemistry and Molecular Biology, Inc. 2018 by The American Society for Biochemistry and Molecular Biology, Inc. Copyright American Society for Biochemistry and Molecular Biology Feb 2018 2018 by The American Society for Biochemistry and Molecular Biology, Inc. 2018 The American Society for Biochemistry and Molecular Biology, Inc. |
| Copyright_xml | – notice: 2018 © 2018 by The American Society for Biochemistry and Molecular Biology, Inc. – notice: 2018 by The American Society for Biochemistry and Molecular Biology, Inc. – notice: Copyright American Society for Biochemistry and Molecular Biology Feb 2018 – notice: 2018 by The American Society for Biochemistry and Molecular Biology, Inc. 2018 The American Society for Biochemistry and Molecular Biology, Inc. |
| DBID | 6I. AAFTH CGR CUY CVF ECM EIF NPM AAYXX CITATION 7QO 7TM 8FD FR3 P64 RC3 5PM |
| DOI | 10.1074/mcp.RA117.000470 |
| DatabaseName | ScienceDirect Open Access Titles Elsevier:ScienceDirect:Open Access Medline MEDLINE MEDLINE (Ovid) MEDLINE MEDLINE PubMed CrossRef Biotechnology Research Abstracts Nucleic Acids Abstracts Technology Research Database Engineering Research Database Biotechnology and BioEngineering Abstracts Genetics Abstracts PubMed Central (Full Participant titles) |
| DatabaseTitle | MEDLINE Medline Complete MEDLINE with Full Text PubMed MEDLINE (Ovid) CrossRef Genetics Abstracts Engineering Research Database Biotechnology Research Abstracts Technology Research Database Nucleic Acids Abstracts Biotechnology and BioEngineering Abstracts |
| DatabaseTitleList | Genetics Abstracts MEDLINE |
| Database_xml | – sequence: 1 dbid: ECM name: MEDLINE url: https://search.ebscohost.com/login.aspx?direct=true&db=cmedm&site=ehost-live sourceTypes: Index Database |
| DeliveryMethod | fulltext_linktorsrc |
| Discipline | Anatomy & Physiology Biology |
| DocumentTitleAlternate | Revealing mitochondrial interactome by XL-MS |
| EISSN | 1535-9484 |
| EndPage | 232 |
| ExternalDocumentID | 10_1074_mcp_RA117_000470 29222160 S1535947620322660 |
| Genre | Research Support, Non-U.S. Gov't Journal Article Research Support, N.I.H., Intramural |
| GroupedDBID | --- 0SF 123 18M 29M 2WC 34G 39C 4.4 53G 5VS 6I. AAEDW AAFTH AAFWJ AAXUO ABDNZ ACGFO ACIWK ACPRK ACYGS ADBBV AENEX AEXQZ AFPKN AFRAH ALMA_UNASSIGNED_HOLDINGS AMRAJ AOIJS BAWUL BTFSW C1A CS3 DIK DU5 E3Z EBS EJD F5P FDB FRP GROUPED_DOAJ GX1 HH5 HYE KQ8 OK1 P2P RHF RHI RNS ROL RPM TBC TR2 W8F WOQ ZA5 0R~ AALRI ADVLN AITUG AKRWK CGR CUY CVF ECM EIF H13 NPM AAYXX CITATION 7QO 7TM 8FD FR3 P64 RC3 5PM |
| ID | FETCH-LOGICAL-c541t-fb7c67d9b7a1a5a0a454176f5261da84483fce2371196c83f5953d15d02db1a23 |
| IEDL.DBID | RPM |
| ISSN | 1535-9476 |
| IngestDate | Tue Sep 17 21:27:19 EDT 2024 Mon Nov 04 11:35:08 EST 2024 Thu Nov 21 23:33:59 EST 2024 Sat Nov 02 12:28:34 EDT 2024 Fri Feb 23 02:45:48 EST 2024 |
| IsDoiOpenAccess | true |
| IsOpenAccess | true |
| IsPeerReviewed | true |
| IsScholarly | true |
| Issue | 2 |
| Language | English |
| License | This is an open access article under the CC BY license. 2018 by The American Society for Biochemistry and Molecular Biology, Inc. Author's Choice—Final version free via Creative Commons CC-BY license. |
| LinkModel | DirectLink |
| MergedId | FETCHMERGED-LOGICAL-c541t-fb7c67d9b7a1a5a0a454176f5261da84483fce2371196c83f5953d15d02db1a23 |
| Notes | These authors contributed equally to this work. Author contributions: F.L., P.L., B.M.R., R.S.B., and A.J.R.H. designed the research; F.L., P.L., and B.M.R. performed the research; F.L. and B.M.R. contributed new reagents/analytic tools; F.L., P.L., R.S.B., and A.J.R.H. analyzed data; and F.L., P.L., B.M.R., R.S.B., and A.J.R.H. wrote the paper. |
| OpenAccessLink | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5795388/ |
| PMID | 29222160 |
| PQID | 2006902915 |
| PQPubID | 2046230 |
| PageCount | 17 |
| ParticipantIDs | pubmedcentral_primary_oai_pubmedcentral_nih_gov_5795388 proquest_journals_2006902915 crossref_primary_10_1074_mcp_RA117_000470 pubmed_primary_29222160 elsevier_sciencedirect_doi_10_1074_mcp_RA117_000470 |
| PublicationCentury | 2000 |
| PublicationDate | 2018-02-01 |
| PublicationDateYYYYMMDD | 2018-02-01 |
| PublicationDate_xml | – month: 02 year: 2018 text: 2018-02-01 day: 01 |
| PublicationDecade | 2010 |
| PublicationPlace | United States |
| PublicationPlace_xml | – name: United States – name: Rockville |
| PublicationTitle | Molecular & cellular proteomics |
| PublicationTitleAlternate | Mol Cell Proteomics |
| PublicationYear | 2018 |
| Publisher | Elsevier Inc American Society for Biochemistry and Molecular Biology The American Society for Biochemistry and Molecular Biology |
| Publisher_xml | – name: Elsevier Inc – name: American Society for Biochemistry and Molecular Biology – name: The American Society for Biochemistry and Molecular Biology |
| References | Murphy, Eisner (bib40) 2009; 104 Smith (bib5) 2016; 15 Zhou, Rohou, Schep, Bason, Montgomery, Walker, Grigorieff, Rubinstein (bib16) 2015; 4 Schwanhäusser, Busse, Li, Dittmar, Schuchhardt, Wolf, Chen, Selbach (bib50) 2011; 473 Shannon, Markiel, Ozier, Baliga, Wang, Ramage, Amin, Schwikowski, Ideker (bib47) 2003; 13 Huen, Huang, Leung, Sy, Leung, Ching, Tsao, Chen (bib61) 2010; 37 Chouchani, Pell, Gaude, Aksentijević, Sundier, Robb, Logan, Nadtochiy, Ord, Smith, Eyassu, Shirley, Hu, Dare, James, Rogatti, Hartley, Eaton, Costa, Brookes, Davidson, Duchen, Saeb-Parsy, Shattock, Robinson, Work, Frezza, Krieg, Murphy (bib6) 2014; 515 Floyd, Wilkerson, Veling, Minogue, Xia, Beebe, Wrobel, Cho, Kremer, Alston, Gromek, Dolan, Ulbrich, Stefely, Bohl, Werner, Jochem, Westphall, Rensvold, Taylor, Prokisch, Kim, Coon, Pagliarini (bib8) 2016; 63 Lemasters, Theruvath, Zhong, Nieminen (bib42) 2009; 1787 Görisch, Lichter, Rippe (bib52) 2005; 123 Glancy, Willis, Chess, Balaban (bib85) 2013; 52 Taylor, Fahy, Zhang, Glenn, Warnock, Wiley, Murphy, Gaucher, Capaldi, Gibson, Ghosh (bib21) 2003; 21 van Zundert, Bonvin (bib69) 2015; 31 van Zundert, Trellet, Schaarschmidt, Kurkcuoglu, David, Verlato, Rosato, Bonvin (bib46) 2017; 429 Hesketh, Youn, Samavarchi-Tehrani, Raught, Gingras (bib81) 2017; 1550 Boumans, Grivell, Berden (bib84) 1998; 273 Schägger, Pfeiffer (bib15) 2000; 19 Hsu, Youle (bib22) 1997; 272 Froese, Kochan, Muniz, Wu, Gileadi, Ugochukwu, Krysztofinska, Gravel, Oppermann, Yue (bib59) 2010; 285 Wittig, Carrozzo, Santorelli, Schägger (bib67) 2006; 1757 Stefely, Kwiecien, Freiberger, Richards, Jochem, Rush, Ulbrich, Robinson, Hutchins, Veling, Guo, Kemmerer, Connors, Trujillo, Sokol, Marx, Westphall, Hebert, Pagliarini, Coon (bib7) 2016; 34 Strauss, Hofhaus, Schröder, Kühlbrandt (bib24) 2008; 27 Varnaitė, MacNeill (bib75) 2016; 16 Combe, Fischer, Rappsilber (bib48) 2015; 14 Tyanova, Temu, Cox (bib49) 2016; 11 Pagliarini, Calvo, Chang, Sheth, Vafai, Ong, Walford, Sugiana, Boneh, Chen, Hill, Vidal, Evans, Thorburn, Carr, Mootha (bib2) 2008; 134 Liu, Rijkers, Post, Heck (bib31) 2015; 12 Vizcaíno, Csordas, del-Toro, Dianes, Griss, Lavidas, Mayer, Perez-Riverol, Reisinger, Ternent, Xu, Wang, Hermjakob (bib88) 2016; 44 Hodgkinson, Idaghdour, Gbeha, Grenier, Hip-Ki, Bruat, Goulet, de Malliard, Awadalla (bib4) 2014; 344 Piechaczyk, Farràs (bib62) 2008; 36 Kim, Roux (bib74) 2016; 26 Lam, Martell, Kamer, Deerinck, Ellisman, Mootha, Ting (bib79) 2015; 12 Aitchison, Rout (bib9) 2015; 211 Robinson, Srere (bib11) 1985; 260 Yogev, Pines (bib64) 2011; 1808 Kowaltowski, Cosso, Campos, Fiskum (bib39) 2002; 277 Lenaz, Tioli, Falasca, Genova (bib83) 2016; 1857 Davies, Strauss, Daum, Kief, Osiewacz, Rycovska, Zickerman, Kühlbrandt (bib23) 2011; 108 Liu, Heck (bib26) 2015; 35 Rolland, Tasan, Charloteaux, Pevzner, Zhong, Sahni, Yi, Lemmens, Fontanillo, Mosca, Kamburov, Ghiassian, Yang, Ghamsari, Balcha, Begg, Braun, Brehme, Broly, Carvunis, Convery-Zupan, Corominas, Coulombe-Huntington, Dann, Dreze, Dricot, Fan, Franzosa, Gebreab, Gutierrez, Hardy, Jin, Kang, Kiros, Lin, Luck, MacWilliams, Menche, Murray, Palagi, Poulin, Rambout, Rasla, Reichert, Romero, Ruyssinck, Sahalie, Scholz, Shah, Sharma, Shen, Spirohn, Tam, Tejeda, Trigg, Twizere, Vega, Walsh, Cusick, Xia, Barabási, Iakoucheva, Aloy, De Las Rivas, Tavernier, Calderwood, Hill, Hao, Roth, Vidal (bib56) 2014; 159 Islam, Wallin, Wynn, Conway, Fujii, Mobley, Chuang, Hutson (bib13) 2007; 282 Johnson, Zaretskaya, Raytselis, Merezhuk, McGinnis, Madden (bib45) 2008; 36 Merkley, Rysavy, Kahraman, Hafen, Daggett, Adkins (bib65) 2014; 23 Corcelli, Saponetti, Zaccagnino, Lopalco, Mastrodonato, Liquori, Lorusso (bib36) 2010; 1798 Huttlin, Ting, Bruckner, Gebreab, Gygi, Szpyt, Tam, Zarraga, Colby, Baltier, Dong, Guarani, Vaites, Ordureau, Rad, Erickson, Wühr, Chick, Zhai, Kolippakkam, Mintseris, Obar, Harris, Artavanis-Tsakonas, Sowa, De Camilli, Paulo, Harper, Gygi (bib55) 2015; 162 Kaake, Wang, Burke, Yu, Kandur, Yang, Novtisky, Second, Duan, Kao, Guan, Vellucci, Rychnovsky, Huang (bib29) 2014; 13 Curtis, Ulrich, Montaser, Prausnitz, Blanch (bib71) 2002; 79 Balsa, Marco, Perales-Clemente, Szklarczyk, Calvo, Landázuri, Enríquez (bib72) 2012; 16 Malty, Jessulat, Jin, Musso, Vlasblom, Phanse, Zhang, Babu (bib1) 2015; 14 Greber, Bieri, Leibundgut, Leitner, Aebersold, Boehringer, Ban (bib20) 2015; 348 Phillips, Covian, Aponte, Glancy, Taylor, Chess, Balaban (bib44) 2012; 302 Hein, Hubner, Poser, Cox, Nagaraj, Toyoda, Gak, Weisswange, Mansfeld, Buchholz, Hyman, Mann (bib80) 2015; 163 John, Shang, Li, Renken, Mannella, Selker, Rangell, Bennett, Zha (bib57) 2005; 16 Zhu, Vinothkumar, Hirst (bib73) 2016; 536 Cox, Hein, Luber, Paron, Nagaraj, Mann (bib51) 2014; 13 Hung, Zou, Rhee, Udeshi, Cracan, Svinkina, Carr, Mootha, Ting (bib77) 2014; 55 Nübel, Wittig, Kerscher, Brandt, Schägger (bib66) 2009; 9 Liu, Lössl, Scheltema, Viner, Heck (bib30) 2017; 8 Schweppe, Chavez, Lee, Caudal, Kruse, Stuppard, Marcinek, Shadel, Tian, Bruce (bib33) 2017; 114 Chavez, Weisbrod, Zheng, Eng, Bruce (bib28) 2013; 12 Ramírez-Aguilar, Keuthe, Rocha, Fedyaev, Kramp, Gupta, Rasmusson, Schulze, van Dongen (bib70) 2011; 286 Calvo, Clauser, Mootha (bib35) 2016; 44 Guo, Zong, Wu, Gu, Yang (bib87) 2017; 170 Vélot, Mixon, Teige, Srere (bib12) 1997; 36 Iglesias-Gonzalez, Sánchez-Iglesias, Beiras-Iglesias, Soto-Otero, Méndez-Álvarez (bib43) 2013; 213 Mühleip, Joos, Wigge, Frangakis, Kühlbrandt, Davies (bib25) 2016; 113 Ruepp, Waegele, Lechner, Brauner, Dunger-Kaltenbach, Fobo, Frishman, Montrone, Mewes (bib53) 2010; 38 Wickham, Duchaîne, Luo, Nabi, DesGroseillers (bib60) 1999; 19 Letts, Fiedorczuk, Sazanov (bib18) 2016; 537 Siess (bib37) 1983; 364 Rhee, Zou, Udeshi, Martell, Mootha, Carr, Ting (bib78) 2013; 339 Borner, Hein, Hirst, Edgar, Mann, Robinson (bib54) 2014; 25 Fiedorczuk, Letts, Degliesposti, Kaszuba, Skehel, Sazanov (bib68) 2016; 538 Bultema, Braun, Boekema, Kouril (bib86) 2009; 1787 Roux, Kim, Burke (bib76) 2013; 74 Wu, Gu, Guo, Huang, Yang (bib17) 2016; 167 van der Laan, Horvath, Pfanner (bib58) 2016; 41 Sinz (bib32) 2017; 409 Son, Heo, Kim, Jeon, Kim, Lee (bib63) 2010; 43 Stock, Rauch, Roseman (bib41) 1977; 252 Chance, Williams (bib82) 1955; 217 Jung, Apel, Brierley (bib38) 1992; 262 Robinson, Sali, Baumeister (bib10) 2007; 450 Pagliarini, Rutter (bib3) 2013; 27 Sousa, Mills, Vonck, Kühlbrandt (bib19) 2016; 5 Leitner, Faini, Stengel, Aebersold (bib27) 2016; 41 Johnson, Harris, French, Blair, You, Bemis, Wang, Balaban (bib34) 2007; 292 Ko, Delannoy, Hullihen, Chiu, Pedersen (bib14) 2003; 278 Hung (10.1074/mcp.RA117.000470_bib77) 2014; 55 Rolland (10.1074/mcp.RA117.000470_bib56) 2014; 159 Jung (10.1074/mcp.RA117.000470_bib38) 1992; 262 Son (10.1074/mcp.RA117.000470_bib63) 2010; 43 Leitner (10.1074/mcp.RA117.000470_bib27) 2016; 41 Robinson (10.1074/mcp.RA117.000470_bib11) 1985; 260 Froese (10.1074/mcp.RA117.000470_bib59) 2010; 285 Cox (10.1074/mcp.RA117.000470_bib51) 2014; 13 Lenaz (10.1074/mcp.RA117.000470_bib83) 2016; 1857 Görisch (10.1074/mcp.RA117.000470_bib52) 2005; 123 Borner (10.1074/mcp.RA117.000470_bib54) 2014; 25 Robinson (10.1074/mcp.RA117.000470_bib10) 2007; 450 Davies (10.1074/mcp.RA117.000470_bib23) 2011; 108 Zhu (10.1074/mcp.RA117.000470_bib73) 2016; 536 Johnson (10.1074/mcp.RA117.000470_bib34) 2007; 292 Murphy (10.1074/mcp.RA117.000470_bib40) 2009; 104 John (10.1074/mcp.RA117.000470_bib57) 2005; 16 Zhou (10.1074/mcp.RA117.000470_bib16) 2015; 4 Letts (10.1074/mcp.RA117.000470_bib18) 2016; 537 Sousa (10.1074/mcp.RA117.000470_bib19) 2016; 5 Fiedorczuk (10.1074/mcp.RA117.000470_bib68) 2016; 538 Tyanova (10.1074/mcp.RA117.000470_bib49) 2016; 11 Wittig (10.1074/mcp.RA117.000470_bib67) 2006; 1757 Combe (10.1074/mcp.RA117.000470_bib48) 2015; 14 Wickham (10.1074/mcp.RA117.000470_bib60) 1999; 19 Pagliarini (10.1074/mcp.RA117.000470_bib3) 2013; 27 Vélot (10.1074/mcp.RA117.000470_bib12) 1997; 36 Schägger (10.1074/mcp.RA117.000470_bib15) 2000; 19 Calvo (10.1074/mcp.RA117.000470_bib35) 2016; 44 Malty (10.1074/mcp.RA117.000470_bib1) 2015; 14 Pagliarini (10.1074/mcp.RA117.000470_bib2) 2008; 134 Siess (10.1074/mcp.RA117.000470_bib37) 1983; 364 Chance (10.1074/mcp.RA117.000470_bib82) 1955; 217 Wu (10.1074/mcp.RA117.000470_bib17) 2016; 167 Greber (10.1074/mcp.RA117.000470_bib20) 2015; 348 van der Laan (10.1074/mcp.RA117.000470_bib58) 2016; 41 Sinz (10.1074/mcp.RA117.000470_bib32) 2017; 409 Kowaltowski (10.1074/mcp.RA117.000470_bib39) 2002; 277 Chouchani (10.1074/mcp.RA117.000470_bib6) 2014; 515 Hodgkinson (10.1074/mcp.RA117.000470_bib4) 2014; 344 Stefely (10.1074/mcp.RA117.000470_bib7) 2016; 34 Guo (10.1074/mcp.RA117.000470_bib87) 2017; 170 Smith (10.1074/mcp.RA117.000470_bib5) 2016; 15 Schwanhäusser (10.1074/mcp.RA117.000470_bib50) 2011; 473 Kim (10.1074/mcp.RA117.000470_bib74) 2016; 26 Kaake (10.1074/mcp.RA117.000470_bib29) 2014; 13 Phillips (10.1074/mcp.RA117.000470_bib44) 2012; 302 Huen (10.1074/mcp.RA117.000470_bib61) 2010; 37 Floyd (10.1074/mcp.RA117.000470_bib8) 2016; 63 Shannon (10.1074/mcp.RA117.000470_bib47) 2003; 13 Ramírez-Aguilar (10.1074/mcp.RA117.000470_bib70) 2011; 286 Vizcaíno (10.1074/mcp.RA117.000470_bib88) 2016; 44 Bultema (10.1074/mcp.RA117.000470_bib86) 2009; 1787 Hein (10.1074/mcp.RA117.000470_bib80) 2015; 163 Glancy (10.1074/mcp.RA117.000470_bib85) 2013; 52 Iglesias-Gonzalez (10.1074/mcp.RA117.000470_bib43) 2013; 213 Chavez (10.1074/mcp.RA117.000470_bib28) 2013; 12 Liu (10.1074/mcp.RA117.000470_bib31) 2015; 12 Piechaczyk (10.1074/mcp.RA117.000470_bib62) 2008; 36 Liu (10.1074/mcp.RA117.000470_bib30) 2017; 8 Balsa (10.1074/mcp.RA117.000470_bib72) 2012; 16 Roux (10.1074/mcp.RA117.000470_bib76) 2013; 74 Rhee (10.1074/mcp.RA117.000470_bib78) 2013; 339 Lemasters (10.1074/mcp.RA117.000470_bib42) 2009; 1787 Huttlin (10.1074/mcp.RA117.000470_bib55) 2015; 162 Curtis (10.1074/mcp.RA117.000470_bib71) 2002; 79 Merkley (10.1074/mcp.RA117.000470_bib65) 2014; 23 Lam (10.1074/mcp.RA117.000470_bib79) 2015; 12 Hesketh (10.1074/mcp.RA117.000470_bib81) 2017; 1550 Taylor (10.1074/mcp.RA117.000470_bib21) 2003; 21 Islam (10.1074/mcp.RA117.000470_bib13) 2007; 282 Yogev (10.1074/mcp.RA117.000470_bib64) 2011; 1808 Strauss (10.1074/mcp.RA117.000470_bib24) 2008; 27 Hsu (10.1074/mcp.RA117.000470_bib22) 1997; 272 Nübel (10.1074/mcp.RA117.000470_bib66) 2009; 9 van Zundert (10.1074/mcp.RA117.000470_bib46) 2017; 429 Boumans (10.1074/mcp.RA117.000470_bib84) 1998; 273 Varnaitė (10.1074/mcp.RA117.000470_bib75) 2016; 16 Ruepp (10.1074/mcp.RA117.000470_bib53) 2010; 38 Mühleip (10.1074/mcp.RA117.000470_bib25) 2016; 113 Stock (10.1074/mcp.RA117.000470_bib41) 1977; 252 Liu (10.1074/mcp.RA117.000470_bib26) 2015; 35 Johnson (10.1074/mcp.RA117.000470_bib45) 2008; 36 Corcelli (10.1074/mcp.RA117.000470_bib36) 2010; 1798 Aitchison (10.1074/mcp.RA117.000470_bib9) 2015; 211 Ko (10.1074/mcp.RA117.000470_bib14) 2003; 278 Schweppe (10.1074/mcp.RA117.000470_bib33) 2017; 114 van Zundert (10.1074/mcp.RA117.000470_bib69) 2015; 31 |
| References_xml | – volume: 348 start-page: 303 year: 2015 end-page: 308 ident: bib20 article-title: Ribosome. The complete structure of the 55S mammalian mitochondrial ribosome publication-title: Science contributor: fullname: Ban – volume: 344 start-page: 413 year: 2014 end-page: 415 ident: bib4 article-title: High-resolution genomic analysis of human mitochondrial RNA sequence variation publication-title: Science contributor: fullname: Awadalla – volume: 14 start-page: 1137 year: 2015 end-page: 1147 ident: bib48 article-title: xiNET: Cross-link network maps with residue resolution publication-title: Mol. Cell. Proteomics contributor: fullname: Rappsilber – volume: 170 start-page: 1247 year: 2017 end-page: 1257.e12 ident: bib87 article-title: Architecture of human mitochondrial respiratory megacomplex I2III2IV2 publication-title: Cell contributor: fullname: Yang – volume: 302 start-page: R1034 year: 2012 end-page: R1048 ident: bib44 article-title: Regulation of oxidative phosphorylation complex activity: Effects of tissue-specific metabolic stress within an allometric series and acute changes in workload publication-title: Am. J. Physiol. Regul. Integr. Comp. Physiol contributor: fullname: Balaban – volume: 163 start-page: 712 year: 2015 end-page: 723 ident: bib80 article-title: A human interactome in three quantitative dimensions organized by stoichiometries and abundances publication-title: Cell contributor: fullname: Mann – volume: 282 start-page: 11893 year: 2007 end-page: 11903 ident: bib13 article-title: A novel branched-chain amino acid metabolon. Protein–protein interactions in a supramolecular complex publication-title: J. Biol. Chem contributor: fullname: Hutson – volume: 5 start-page: e21290 year: 2016 ident: bib19 article-title: Functional asymmetry and electron flow in the bovine respirasome publication-title: eLife contributor: fullname: Kühlbrandt – volume: 429 start-page: 399 year: 2017 end-page: 407 ident: bib46 article-title: The DisVis and PowerFit web servers: Explorative and integrative modeling of biomolecular complexes publication-title: J. Mol. Biol contributor: fullname: Bonvin – volume: 159 start-page: 1212 year: 2014 end-page: 1226 ident: bib56 article-title: A proteome-scale map of the human interactome network publication-title: Cell contributor: fullname: Vidal – volume: 285 start-page: 38204 year: 2010 end-page: 38213 ident: bib59 article-title: Structures of the human GTPase MMAA and vitamin B12-dependent methylmalonyl-CoA mutase and insight into their complex formation publication-title: J. Biol. Chem contributor: fullname: Yue – volume: 79 start-page: 367 year: 2002 end-page: 380 ident: bib71 article-title: Protein–protein interactions in concentrated electrolyte solutions publication-title: Biotechnol. Bioeng contributor: fullname: Blanch – volume: 26 start-page: 804 year: 2016 end-page: 817 ident: bib74 article-title: Filling the void: Proximity-based labeling of proteins in living cells publication-title: Trends Cell Biol contributor: fullname: Roux – volume: 41 start-page: 33 year: 2016 end-page: 42 ident: bib58 article-title: Mitochondrial contact site and cristae organizing system publication-title: Curr. Opin. Cell Biol contributor: fullname: Pfanner – volume: 339 start-page: 1328 year: 2013 end-page: 1331 ident: bib78 article-title: Proteomic mapping of mitochondria in living cells via spatially restricted enzymatic tagging publication-title: Science contributor: fullname: Ting – volume: 41 start-page: 20 year: 2016 end-page: 32 ident: bib27 article-title: Crosslinking and mass spectrometry: An integrated technology to understand the structure and function of molecular machines publication-title: Trends Biochem. Sci contributor: fullname: Aebersold – volume: 16 start-page: 2503 year: 2016 end-page: 2518 ident: bib75 article-title: Meet the neighbors: Mapping local protein interactomes by proximity-dependent labeling with BioID publication-title: Proteomics contributor: fullname: MacNeill – volume: 13 start-page: 2513 year: 2014 end-page: 2526 ident: bib51 article-title: Accurate proteome-wide label-free quantification by delayed normalization and maximal peptide ratio extraction, termed MaxLFQ publication-title: Mol. Cell. Proteomics contributor: fullname: Mann – volume: 63 start-page: 621 year: 2016 end-page: 632 ident: bib8 article-title: Mitochondrial protein interaction mapping identifies regulators of respiratory chain function publication-title: Mol. Cell contributor: fullname: Pagliarini – volume: 114 start-page: 1732 year: 2017 end-page: 1737 ident: bib33 article-title: Mitochondrial protein interactome elucidated by chemical cross-linking mass spectrometry publication-title: Proc. Natl. Acad. Sci. U.S.A contributor: fullname: Bruce – volume: 19 start-page: 1777 year: 2000 end-page: 1783 ident: bib15 article-title: Supercomplexes in the respiratory chains of yeast and mammalian mitochondria publication-title: EMBO J contributor: fullname: Pfeiffer – volume: 52 start-page: 2793 year: 2013 end-page: 2809 ident: bib85 article-title: Effect of calcium on the oxidative phosphorylation cascade in skeletal muscle mitochondria publication-title: Biochemistry contributor: fullname: Balaban – volume: 537 start-page: 644 year: 2016 end-page: 648 ident: bib18 article-title: The architecture of respiratory supercomplexes publication-title: Nature contributor: fullname: Sazanov – volume: 252 start-page: 7850 year: 1977 end-page: 7861 ident: bib41 article-title: Periplasmic space in publication-title: J. Biol. Chem contributor: fullname: Roseman – volume: 536 start-page: 354 year: 2016 end-page: 358 ident: bib73 article-title: Structure of mammalian respiratory complex I publication-title: Nature contributor: fullname: Hirst – volume: 108 start-page: 14121 year: 2011 end-page: 14126 ident: bib23 article-title: Macromolecular organization of ATP synthase and complex I in whole mitochondria publication-title: Proc. Natl. Acad. Sci. U.S.A contributor: fullname: Kühlbrandt – volume: 167 start-page: 1598 year: 2016 end-page: 1609.e10 ident: bib17 article-title: Structure of mammalian respiratory supercomplex I1III2IV1 publication-title: Cell contributor: fullname: Yang – volume: 1550 start-page: 115 year: 2017 end-page: 136 ident: bib81 article-title: Parallel exploration of interaction space by BioID and affinity purification coupled to mass spectrometry publication-title: Proteomics contributor: fullname: Gingras – volume: 19 start-page: 2220 year: 1999 end-page: 2230 ident: bib60 article-title: Mammalian staufen is a double-stranded-RNA- and tubulin-binding protein which localizes to the rough endoplasmic reticulum publication-title: Mol. Cell. Biol contributor: fullname: DesGroseillers – volume: 25 start-page: 3178 year: 2014 end-page: 3194 ident: bib54 article-title: Fractionation profiling: A fast and versatile approach for mapping vesicle proteomes and protein–protein interactions publication-title: Mol. Biol. Cell contributor: fullname: Robinson – volume: 15 start-page: 47 year: 2016 end-page: 54 ident: bib5 article-title: The past, present and future of mitochondrial genomics: Have we sequenced enough mtDNAs? publication-title: Brief. Funct. Genomics contributor: fullname: Smith – volume: 217 start-page: 409 year: 1955 end-page: 427 ident: bib82 article-title: Respiratory enzymes in oxidative phosphorylation. III. The steady state publication-title: J. Biol. Chem contributor: fullname: Williams – volume: 11 start-page: 2301 year: 2016 end-page: 2319 ident: bib49 article-title: The MaxQuant computational platform for mass spectrometry-based shotgun proteomics publication-title: Nature Protocols contributor: fullname: Cox – volume: 1857 start-page: 991 year: 2016 end-page: 1000 ident: bib83 article-title: Complex I function in mitochondrial supercomplexes publication-title: Biochim. Biophys. Acta contributor: fullname: Genova – volume: 473 start-page: 337 year: 2011 end-page: 342 ident: bib50 article-title: Global quantification of mammalian gene expression control publication-title: Nature contributor: fullname: Selbach – volume: 23 start-page: 747 year: 2014 end-page: 759 ident: bib65 article-title: Distance restraints from crosslinking mass spectrometry: mining a molecular dynamics simulation database to evaluate lysine-lysine distances publication-title: Protein Sci contributor: fullname: Adkins – volume: 14 start-page: 5 year: 2015 end-page: 21 ident: bib1 article-title: Mitochondrial targets for pharmacological intervention in human disease publication-title: J. Proteome Res contributor: fullname: Babu – volume: 12 start-page: 1451 year: 2013 end-page: 1467 ident: bib28 article-title: Protein interactions, post-translational modifications and topologies in human cells publication-title: Mol. Cell. Proteomics contributor: fullname: Bruce – volume: 364 start-page: 835 year: 1983 end-page: 838 ident: bib37 article-title: Different actions of mono- and disaccharides on rat liver mitochondria publication-title: Hoppe-Seyler's Zeitschrift fur physiologische Chemie contributor: fullname: Siess – volume: 104 start-page: 292 year: 2009 end-page: 303 ident: bib40 article-title: Regulation of intracellular and mitochondrial sodium in health and disease publication-title: Circ. Res contributor: fullname: Eisner – volume: 35 start-page: 100 year: 2015 end-page: 108 ident: bib26 article-title: Interrogating the architecture of protein assemblies and protein interaction networks by cross-linking mass spectrometry publication-title: Curr. Opin. Struct. Biol contributor: fullname: Heck – volume: 123 start-page: 217 year: 2005 end-page: 228 ident: bib52 article-title: Mobility of multi-subunit complexes in the nucleus: Accessibility and dynamics of chromatin subcompartments publication-title: Histochem. Cell Biol contributor: fullname: Rippe – volume: 272 start-page: 13829 year: 1997 end-page: 13834 ident: bib22 article-title: Nonionic detergents induce dimerization among members of the Bcl-2 family publication-title: J. Biol. Chem contributor: fullname: Youle – volume: 37 start-page: 854 year: 2010 end-page: 864 ident: bib61 article-title: Regulation of chromatin architecture by the PWWP domain-containing DNA damage-responsive factor EXPAND1/MUM1 publication-title: Mol. Cell contributor: fullname: Chen – volume: 36 start-page: 14271 year: 1997 end-page: 14276 ident: bib12 article-title: Model of a quinary structure between Krebs TCA cycle enzymes: A model for the metabolon publication-title: Biochemistry contributor: fullname: Srere – volume: 36 start-page: W5 year: 2008 end-page: W9 ident: bib45 article-title: NCBI BLAST: A better web interface publication-title: Nucleic Acids Res contributor: fullname: Madden – volume: 450 start-page: 973 year: 2007 end-page: 982 ident: bib10 article-title: The molecular sociology of the cell publication-title: Nature contributor: fullname: Baumeister – volume: 31 start-page: 3222 year: 2015 end-page: 3224 ident: bib69 article-title: DisVis: quantifying and visualizing accessible interaction space of distance-restrained biomolecular complexes publication-title: Bioinformatics contributor: fullname: Bonvin – volume: 4 start-page: e10180 year: 2015 ident: bib16 article-title: Structure and conformational states of the bovine mitochondrial ATP synthase by cryo-EM publication-title: eLife contributor: fullname: Rubinstein – volume: 213 start-page: 39 year: 2013 end-page: 42 ident: bib43 article-title: A simple method for isolating rat brain mitochondria with high metabolic activity: Effects of EDTA and EGTA publication-title: J. Neurosci. Methods contributor: fullname: Méndez-Álvarez – volume: 44 start-page: D447 year: 2016 end-page: D456 ident: bib88 article-title: 2016 update of the PRIDE database and its related tools publication-title: Nucleic Acids Res contributor: fullname: Hermjakob – volume: 260 start-page: 10800 year: 1985 end-page: 10805 ident: bib11 article-title: Organization of Krebs tricarboxylic acid cycle enzymes in mitochondria publication-title: J. Biol. Chem contributor: fullname: Srere – volume: 262 start-page: C1047 year: 1992 end-page: C1055 ident: bib38 article-title: Transmembrane gradients of free Na+ in isolated heart mitochondria estimated using a fluorescent probe publication-title: Am. J. Physiol contributor: fullname: Brierley – volume: 162 start-page: 425 year: 2015 end-page: 440 ident: bib55 article-title: The BioPlex network: A systematic exploration of the human interactome publication-title: Cell contributor: fullname: Gygi – volume: 16 start-page: 1543 year: 2005 end-page: 1554 ident: bib57 article-title: The mitochondrial inner membrane protein mitofilin controls cristae morphology publication-title: Mol. Biol. Cell contributor: fullname: Zha – volume: 1757 start-page: 1066 year: 2006 end-page: 1072 ident: bib67 article-title: Supercomplexes and subcomplexes of mitochondrial oxidative phosphorylation publication-title: Biochim. Biophys. Acta contributor: fullname: Schägger – volume: 538 start-page: 406 year: 2016 end-page: 410 ident: bib68 article-title: Atomic structure of the entire mammalian mitochondrial complex I publication-title: Nature contributor: fullname: Sazanov – volume: 273 start-page: 4872 year: 1998 end-page: 4877 ident: bib84 article-title: The respiratory chain in yeast behaves as a single functional unit publication-title: J. Biol. Chem contributor: fullname: Berden – volume: 43 start-page: 57 year: 2010 end-page: 61 ident: bib63 article-title: Over-expression of JunB inhibits mitochondrial stress and cytotoxicity in human lymphoma cells exposed to chronic oxidative stress publication-title: BMB Rep contributor: fullname: Lee – volume: 44 start-page: D1251 year: 2016 end-page: D1257 ident: bib35 article-title: MitoCarta2.0: an updated inventory of mammalian mitochondrial proteins publication-title: Nucleic Acids Res contributor: fullname: Mootha – volume: 286 start-page: 43045 year: 2011 end-page: 43053 ident: bib70 article-title: The composition of plant mitochondrial supercomplexes changes with oxygen availability publication-title: J. Biol. Chem contributor: fullname: van Dongen – volume: 1787 start-page: 60 year: 2009 end-page: 67 ident: bib86 article-title: Megacomplex organization of the oxidative phosphorylation system by structural analysis of respiratory supercomplexes from potato publication-title: Biochim. Biophys. Acta contributor: fullname: Kouril – volume: 34 start-page: 1191 year: 2016 end-page: 1197 ident: bib7 article-title: Mitochondrial protein functions elucidated by multi-omic mass spectrometry profiling publication-title: Nat. Biotechnol contributor: fullname: Coon – volume: 13 start-page: 3533 year: 2014 end-page: 3543 ident: bib29 article-title: A new in vivo cross-linking mass spectrometry platform to define protein–protein interactions in living cells publication-title: Mol. Cell. Proteomics contributor: fullname: Huang – volume: 36 start-page: 864 year: 2008 end-page: 867 ident: bib62 article-title: Regulation and function of JunB in cell proliferation publication-title: Biochem. Soc. Trans contributor: fullname: Farràs – volume: 113 start-page: 8442 year: 2016 end-page: 8447 ident: bib25 article-title: Helical arrays of U-shaped ATP synthase dimers form tubular cristae in ciliate mitochondria publication-title: Proc. Natl. Acad. Sci. U.S.A contributor: fullname: Davies – volume: 1798 start-page: 681 year: 2010 end-page: 687 ident: bib36 article-title: Mitochondria isolated in nearly isotonic KCl buffer: Focus on cardiolipin and organelle morphology publication-title: Biochim. Biophys. Acta contributor: fullname: Lorusso – volume: 21 start-page: 281 year: 2003 end-page: 286 ident: bib21 article-title: Characterization of the human heart mitochondrial proteome publication-title: Nature Biotechnology contributor: fullname: Ghosh – volume: 27 start-page: 1154 year: 2008 end-page: 1160 ident: bib24 article-title: Dimer ribbons of ATP synthase shape the inner mitochondrial membrane publication-title: EMBO J contributor: fullname: Kühlbrandt – volume: 74 start-page: 19.23.1 year: 2013 end-page: 19.23.14 ident: bib76 article-title: BioID: A screen for protein–protein interactions publication-title: Curr. Protocols Protein Sci contributor: fullname: Burke – volume: 134 start-page: 112 year: 2008 end-page: 123 ident: bib2 article-title: A mitochondrial protein compendium elucidates complex I disease biology publication-title: Cell contributor: fullname: Mootha – volume: 9 start-page: 2408 year: 2009 end-page: 2418 ident: bib66 article-title: Two-dimensional native electrophoretic analysis of respiratory supercomplexes from publication-title: Proteomics contributor: fullname: Schägger – volume: 1787 start-page: 1395 year: 2009 end-page: 1401 ident: bib42 article-title: Mitochondrial calcium and the permeability transition in cell death publication-title: Biochim. Biophys. Acta contributor: fullname: Nieminen – volume: 12 start-page: 1179 year: 2015 end-page: 1184 ident: bib31 article-title: Proteome-wide profiling of protein assemblies by cross-linking mass spectrometry publication-title: Nature Methods contributor: fullname: Heck – volume: 409 start-page: 33 year: 2017 end-page: 44 ident: bib32 article-title: Divide and conquer: cleavable cross-linkers to study protein conformation and protein–protein interactions publication-title: Anal. Bioanal. Chem contributor: fullname: Sinz – volume: 38 start-page: D497 year: 2010 end-page: D501 ident: bib53 article-title: CORUM: The comprehensive resource of mammalian protein complexes—2009 publication-title: Nucleic Acids Res contributor: fullname: Mewes – volume: 211 start-page: 729 year: 2015 end-page: 732 ident: bib9 article-title: The interactome challenge publication-title: J. Cell Biol contributor: fullname: Rout – volume: 278 start-page: 12305 year: 2003 end-page: 12309 ident: bib14 article-title: Mitochondrial ATP synthasome. Cristae-enriched membranes and a multiwell detergent screening assay yield dispersed single complexes containing the ATP synthase and carriers for Pi and ADP/ATP publication-title: J. Biol. Chem contributor: fullname: Pedersen – volume: 8 start-page: 15473 year: 2017 ident: bib30 article-title: Optimized fragmentation schemes and data analysis strategies for proteome-wide cross-link identification publication-title: Nat Commun contributor: fullname: Heck – volume: 1808 start-page: 1012 year: 2011 end-page: 1020 ident: bib64 article-title: Dual targeting of mitochondrial proteins: Mechanism, regulation and function publication-title: Biochim. Biophys. Acta contributor: fullname: Pines – volume: 55 start-page: 332 year: 2014 end-page: 341 ident: bib77 article-title: Proteomic mapping of the human mitochondrial intermembrane space in live cells via ratiometric APEX tagging publication-title: Mol. Cell contributor: fullname: Ting – volume: 277 start-page: 42802 year: 2002 end-page: 42807 ident: bib39 article-title: Effect of Bcl-2 overexpression on mitochondrial structure and function publication-title: J. Biol. Chem contributor: fullname: Fiskum – volume: 13 start-page: 2498 year: 2003 end-page: 2504 ident: bib47 article-title: Cytoscape: A software environment for integrated models of biomolecular interaction networks publication-title: Genome Res contributor: fullname: Ideker – volume: 27 start-page: 2615 year: 2013 end-page: 2627 ident: bib3 article-title: Hallmarks of a new era in mitochondrial biochemistry publication-title: Genes Dev contributor: fullname: Rutter – volume: 292 start-page: C689 year: 2007 end-page: C697 ident: bib34 article-title: Tissue heterogeneity of the mammalian mitochondrial proteome publication-title: Am. J. Physiol. Cell Physiol contributor: fullname: Balaban – volume: 12 start-page: 51 year: 2015 end-page: 54 ident: bib79 article-title: Directed evolution of APEX2 for electron microscopy and proximity labeling publication-title: Nature Methods contributor: fullname: Ting – volume: 16 start-page: 378 year: 2012 end-page: 386 ident: bib72 article-title: NDUFA4 is a subunit of complex IV of the mammalian electron transport chain publication-title: Cell Metabolism contributor: fullname: Enríquez – volume: 515 start-page: 431 year: 2014 end-page: 435 ident: bib6 article-title: Ischaemic accumulation of succinate controls reperfusion injury through mitochondrial ROS publication-title: Nature contributor: fullname: Murphy – volume: 27 start-page: 1154 year: 2008 ident: 10.1074/mcp.RA117.000470_bib24 article-title: Dimer ribbons of ATP synthase shape the inner mitochondrial membrane publication-title: EMBO J doi: 10.1038/emboj.2008.35 contributor: fullname: Strauss – volume: 286 start-page: 43045 year: 2011 ident: 10.1074/mcp.RA117.000470_bib70 article-title: The composition of plant mitochondrial supercomplexes changes with oxygen availability publication-title: J. Biol. Chem doi: 10.1074/jbc.M111.252544 contributor: fullname: Ramírez-Aguilar – volume: 515 start-page: 431 year: 2014 ident: 10.1074/mcp.RA117.000470_bib6 article-title: Ischaemic accumulation of succinate controls reperfusion injury through mitochondrial ROS publication-title: Nature doi: 10.1038/nature13909 contributor: fullname: Chouchani – volume: 25 start-page: 3178 year: 2014 ident: 10.1074/mcp.RA117.000470_bib54 article-title: Fractionation profiling: A fast and versatile approach for mapping vesicle proteomes and protein–protein interactions publication-title: Mol. Biol. Cell doi: 10.1091/mbc.e14-07-1198 contributor: fullname: Borner – volume: 159 start-page: 1212 year: 2014 ident: 10.1074/mcp.RA117.000470_bib56 article-title: A proteome-scale map of the human interactome network publication-title: Cell doi: 10.1016/j.cell.2014.10.050 contributor: fullname: Rolland – volume: 38 start-page: D497 year: 2010 ident: 10.1074/mcp.RA117.000470_bib53 article-title: CORUM: The comprehensive resource of mammalian protein complexes—2009 publication-title: Nucleic Acids Res doi: 10.1093/nar/gkp914 contributor: fullname: Ruepp – volume: 1787 start-page: 1395 year: 2009 ident: 10.1074/mcp.RA117.000470_bib42 article-title: Mitochondrial calcium and the permeability transition in cell death publication-title: Biochim. Biophys. Acta doi: 10.1016/j.bbabio.2009.06.009 contributor: fullname: Lemasters – volume: 262 start-page: C1047 year: 1992 ident: 10.1074/mcp.RA117.000470_bib38 article-title: Transmembrane gradients of free Na+ in isolated heart mitochondria estimated using a fluorescent probe publication-title: Am. J. Physiol doi: 10.1152/ajpcell.1992.262.4.C1047 contributor: fullname: Jung – volume: 14 start-page: 1137 year: 2015 ident: 10.1074/mcp.RA117.000470_bib48 article-title: xiNET: Cross-link network maps with residue resolution publication-title: Mol. Cell. Proteomics doi: 10.1074/mcp.O114.042259 contributor: fullname: Combe – volume: 302 start-page: R1034 year: 2012 ident: 10.1074/mcp.RA117.000470_bib44 article-title: Regulation of oxidative phosphorylation complex activity: Effects of tissue-specific metabolic stress within an allometric series and acute changes in workload publication-title: Am. J. Physiol. Regul. Integr. Comp. Physiol doi: 10.1152/ajpregu.00596.2011 contributor: fullname: Phillips – volume: 14 start-page: 5 year: 2015 ident: 10.1074/mcp.RA117.000470_bib1 article-title: Mitochondrial targets for pharmacological intervention in human disease publication-title: J. Proteome Res doi: 10.1021/pr500813f contributor: fullname: Malty – volume: 339 start-page: 1328 year: 2013 ident: 10.1074/mcp.RA117.000470_bib78 article-title: Proteomic mapping of mitochondria in living cells via spatially restricted enzymatic tagging publication-title: Science doi: 10.1126/science.1230593 contributor: fullname: Rhee – volume: 429 start-page: 399 year: 2017 ident: 10.1074/mcp.RA117.000470_bib46 article-title: The DisVis and PowerFit web servers: Explorative and integrative modeling of biomolecular complexes publication-title: J. Mol. Biol doi: 10.1016/j.jmb.2016.11.032 contributor: fullname: van Zundert – volume: 21 start-page: 281 year: 2003 ident: 10.1074/mcp.RA117.000470_bib21 article-title: Characterization of the human heart mitochondrial proteome publication-title: Nature Biotechnology doi: 10.1038/nbt793 contributor: fullname: Taylor – volume: 272 start-page: 13829 year: 1997 ident: 10.1074/mcp.RA117.000470_bib22 article-title: Nonionic detergents induce dimerization among members of the Bcl-2 family publication-title: J. Biol. Chem doi: 10.1074/jbc.272.21.13829 contributor: fullname: Hsu – volume: 134 start-page: 112 year: 2008 ident: 10.1074/mcp.RA117.000470_bib2 article-title: A mitochondrial protein compendium elucidates complex I disease biology publication-title: Cell doi: 10.1016/j.cell.2008.06.016 contributor: fullname: Pagliarini – volume: 409 start-page: 33 year: 2017 ident: 10.1074/mcp.RA117.000470_bib32 article-title: Divide and conquer: cleavable cross-linkers to study protein conformation and protein–protein interactions publication-title: Anal. Bioanal. Chem doi: 10.1007/s00216-016-9941-x contributor: fullname: Sinz – volume: 348 start-page: 303 year: 2015 ident: 10.1074/mcp.RA117.000470_bib20 article-title: Ribosome. The complete structure of the 55S mammalian mitochondrial ribosome publication-title: Science doi: 10.1126/science.aaa3872 contributor: fullname: Greber – volume: 9 start-page: 2408 year: 2009 ident: 10.1074/mcp.RA117.000470_bib66 article-title: Two-dimensional native electrophoretic analysis of respiratory supercomplexes from Yarrowia lipolytica publication-title: Proteomics doi: 10.1002/pmic.200800632 contributor: fullname: Nübel – volume: 1808 start-page: 1012 year: 2011 ident: 10.1074/mcp.RA117.000470_bib64 article-title: Dual targeting of mitochondrial proteins: Mechanism, regulation and function publication-title: Biochim. Biophys. Acta doi: 10.1016/j.bbamem.2010.07.004 contributor: fullname: Yogev – volume: 15 start-page: 47 year: 2016 ident: 10.1074/mcp.RA117.000470_bib5 article-title: The past, present and future of mitochondrial genomics: Have we sequenced enough mtDNAs? publication-title: Brief. Funct. Genomics contributor: fullname: Smith – volume: 19 start-page: 2220 year: 1999 ident: 10.1074/mcp.RA117.000470_bib60 article-title: Mammalian staufen is a double-stranded-RNA- and tubulin-binding protein which localizes to the rough endoplasmic reticulum publication-title: Mol. Cell. Biol doi: 10.1128/MCB.19.3.2220 contributor: fullname: Wickham – volume: 19 start-page: 1777 year: 2000 ident: 10.1074/mcp.RA117.000470_bib15 article-title: Supercomplexes in the respiratory chains of yeast and mammalian mitochondria publication-title: EMBO J doi: 10.1093/emboj/19.8.1777 contributor: fullname: Schägger – volume: 537 start-page: 644 year: 2016 ident: 10.1074/mcp.RA117.000470_bib18 article-title: The architecture of respiratory supercomplexes publication-title: Nature doi: 10.1038/nature19774 contributor: fullname: Letts – volume: 16 start-page: 1543 year: 2005 ident: 10.1074/mcp.RA117.000470_bib57 article-title: The mitochondrial inner membrane protein mitofilin controls cristae morphology publication-title: Mol. Biol. Cell doi: 10.1091/mbc.e04-08-0697 contributor: fullname: John – volume: 79 start-page: 367 year: 2002 ident: 10.1074/mcp.RA117.000470_bib71 article-title: Protein–protein interactions in concentrated electrolyte solutions publication-title: Biotechnol. Bioeng doi: 10.1002/bit.10342 contributor: fullname: Curtis – volume: 114 start-page: 1732 year: 2017 ident: 10.1074/mcp.RA117.000470_bib33 article-title: Mitochondrial protein interactome elucidated by chemical cross-linking mass spectrometry publication-title: Proc. Natl. Acad. Sci. U.S.A doi: 10.1073/pnas.1617220114 contributor: fullname: Schweppe – volume: 473 start-page: 337 year: 2011 ident: 10.1074/mcp.RA117.000470_bib50 article-title: Global quantification of mammalian gene expression control publication-title: Nature doi: 10.1038/nature10098 contributor: fullname: Schwanhäusser – volume: 344 start-page: 413 year: 2014 ident: 10.1074/mcp.RA117.000470_bib4 article-title: High-resolution genomic analysis of human mitochondrial RNA sequence variation publication-title: Science doi: 10.1126/science.1251110 contributor: fullname: Hodgkinson – volume: 217 start-page: 409 year: 1955 ident: 10.1074/mcp.RA117.000470_bib82 article-title: Respiratory enzymes in oxidative phosphorylation. III. The steady state publication-title: J. Biol. Chem doi: 10.1016/S0021-9258(19)57191-5 contributor: fullname: Chance – volume: 162 start-page: 425 year: 2015 ident: 10.1074/mcp.RA117.000470_bib55 article-title: The BioPlex network: A systematic exploration of the human interactome publication-title: Cell doi: 10.1016/j.cell.2015.06.043 contributor: fullname: Huttlin – volume: 1787 start-page: 60 year: 2009 ident: 10.1074/mcp.RA117.000470_bib86 article-title: Megacomplex organization of the oxidative phosphorylation system by structural analysis of respiratory supercomplexes from potato publication-title: Biochim. Biophys. Acta doi: 10.1016/j.bbabio.2008.10.010 contributor: fullname: Bultema – volume: 123 start-page: 217 year: 2005 ident: 10.1074/mcp.RA117.000470_bib52 article-title: Mobility of multi-subunit complexes in the nucleus: Accessibility and dynamics of chromatin subcompartments publication-title: Histochem. Cell Biol doi: 10.1007/s00418-005-0752-y contributor: fullname: Görisch – volume: 12 start-page: 51 year: 2015 ident: 10.1074/mcp.RA117.000470_bib79 article-title: Directed evolution of APEX2 for electron microscopy and proximity labeling publication-title: Nature Methods doi: 10.1038/nmeth.3179 contributor: fullname: Lam – volume: 63 start-page: 621 year: 2016 ident: 10.1074/mcp.RA117.000470_bib8 article-title: Mitochondrial protein interaction mapping identifies regulators of respiratory chain function publication-title: Mol. Cell doi: 10.1016/j.molcel.2016.06.033 contributor: fullname: Floyd – volume: 11 start-page: 2301 year: 2016 ident: 10.1074/mcp.RA117.000470_bib49 article-title: The MaxQuant computational platform for mass spectrometry-based shotgun proteomics publication-title: Nature Protocols doi: 10.1038/nprot.2016.136 contributor: fullname: Tyanova – volume: 44 start-page: D447 year: 2016 ident: 10.1074/mcp.RA117.000470_bib88 article-title: 2016 update of the PRIDE database and its related tools publication-title: Nucleic Acids Res doi: 10.1093/nar/gkv1145 contributor: fullname: Vizcaíno – volume: 252 start-page: 7850 year: 1977 ident: 10.1074/mcp.RA117.000470_bib41 article-title: Periplasmic space in Salmonella typhimuriumEscherichia coli publication-title: J. Biol. Chem doi: 10.1016/S0021-9258(17)41044-1 contributor: fullname: Stock – volume: 31 start-page: 3222 year: 2015 ident: 10.1074/mcp.RA117.000470_bib69 article-title: DisVis: quantifying and visualizing accessible interaction space of distance-restrained biomolecular complexes publication-title: Bioinformatics doi: 10.1093/bioinformatics/btv333 contributor: fullname: van Zundert – volume: 5 start-page: e21290 year: 2016 ident: 10.1074/mcp.RA117.000470_bib19 article-title: Functional asymmetry and electron flow in the bovine respirasome publication-title: eLife doi: 10.7554/eLife.21290 contributor: fullname: Sousa – volume: 538 start-page: 406 year: 2016 ident: 10.1074/mcp.RA117.000470_bib68 article-title: Atomic structure of the entire mammalian mitochondrial complex I publication-title: Nature doi: 10.1038/nature19794 contributor: fullname: Fiedorczuk – volume: 34 start-page: 1191 year: 2016 ident: 10.1074/mcp.RA117.000470_bib7 article-title: Mitochondrial protein functions elucidated by multi-omic mass spectrometry profiling publication-title: Nat. Biotechnol doi: 10.1038/nbt.3683 contributor: fullname: Stefely – volume: 4 start-page: e10180 year: 2015 ident: 10.1074/mcp.RA117.000470_bib16 article-title: Structure and conformational states of the bovine mitochondrial ATP synthase by cryo-EM publication-title: eLife doi: 10.7554/eLife.10180 contributor: fullname: Zhou – volume: 36 start-page: 14271 year: 1997 ident: 10.1074/mcp.RA117.000470_bib12 article-title: Model of a quinary structure between Krebs TCA cycle enzymes: A model for the metabolon publication-title: Biochemistry doi: 10.1021/bi972011j contributor: fullname: Vélot – volume: 1798 start-page: 681 year: 2010 ident: 10.1074/mcp.RA117.000470_bib36 article-title: Mitochondria isolated in nearly isotonic KCl buffer: Focus on cardiolipin and organelle morphology publication-title: Biochim. Biophys. Acta doi: 10.1016/j.bbamem.2010.01.005 contributor: fullname: Corcelli – volume: 23 start-page: 747 year: 2014 ident: 10.1074/mcp.RA117.000470_bib65 article-title: Distance restraints from crosslinking mass spectrometry: mining a molecular dynamics simulation database to evaluate lysine-lysine distances publication-title: Protein Sci doi: 10.1002/pro.2458 contributor: fullname: Merkley – volume: 278 start-page: 12305 year: 2003 ident: 10.1074/mcp.RA117.000470_bib14 article-title: Mitochondrial ATP synthasome. Cristae-enriched membranes and a multiwell detergent screening assay yield dispersed single complexes containing the ATP synthase and carriers for Pi and ADP/ATP publication-title: J. Biol. Chem doi: 10.1074/jbc.C200703200 contributor: fullname: Ko – volume: 27 start-page: 2615 year: 2013 ident: 10.1074/mcp.RA117.000470_bib3 article-title: Hallmarks of a new era in mitochondrial biochemistry publication-title: Genes Dev doi: 10.1101/gad.229724.113 contributor: fullname: Pagliarini – volume: 12 start-page: 1451 year: 2013 ident: 10.1074/mcp.RA117.000470_bib28 article-title: Protein interactions, post-translational modifications and topologies in human cells publication-title: Mol. Cell. Proteomics doi: 10.1074/mcp.M112.024497 contributor: fullname: Chavez – volume: 1757 start-page: 1066 year: 2006 ident: 10.1074/mcp.RA117.000470_bib67 article-title: Supercomplexes and subcomplexes of mitochondrial oxidative phosphorylation publication-title: Biochim. Biophys. Acta doi: 10.1016/j.bbabio.2006.05.006 contributor: fullname: Wittig – volume: 167 start-page: 1598 year: 2016 ident: 10.1074/mcp.RA117.000470_bib17 article-title: Structure of mammalian respiratory supercomplex I1III2IV1 publication-title: Cell doi: 10.1016/j.cell.2016.11.012 contributor: fullname: Wu – volume: 292 start-page: C689 year: 2007 ident: 10.1074/mcp.RA117.000470_bib34 article-title: Tissue heterogeneity of the mammalian mitochondrial proteome publication-title: Am. J. Physiol. Cell Physiol doi: 10.1152/ajpcell.00108.2006 contributor: fullname: Johnson – volume: 213 start-page: 39 year: 2013 ident: 10.1074/mcp.RA117.000470_bib43 article-title: A simple method for isolating rat brain mitochondria with high metabolic activity: Effects of EDTA and EGTA publication-title: J. Neurosci. Methods doi: 10.1016/j.jneumeth.2012.12.005 contributor: fullname: Iglesias-Gonzalez – volume: 12 start-page: 1179 year: 2015 ident: 10.1074/mcp.RA117.000470_bib31 article-title: Proteome-wide profiling of protein assemblies by cross-linking mass spectrometry publication-title: Nature Methods doi: 10.1038/nmeth.3603 contributor: fullname: Liu – volume: 285 start-page: 38204 year: 2010 ident: 10.1074/mcp.RA117.000470_bib59 article-title: Structures of the human GTPase MMAA and vitamin B12-dependent methylmalonyl-CoA mutase and insight into their complex formation publication-title: J. Biol. Chem doi: 10.1074/jbc.M110.177717 contributor: fullname: Froese – volume: 1857 start-page: 991 year: 2016 ident: 10.1074/mcp.RA117.000470_bib83 article-title: Complex I function in mitochondrial supercomplexes publication-title: Biochim. Biophys. Acta doi: 10.1016/j.bbabio.2016.01.013 contributor: fullname: Lenaz – volume: 43 start-page: 57 year: 2010 ident: 10.1074/mcp.RA117.000470_bib63 article-title: Over-expression of JunB inhibits mitochondrial stress and cytotoxicity in human lymphoma cells exposed to chronic oxidative stress publication-title: BMB Rep doi: 10.5483/BMBRep.2010.43.1.057 contributor: fullname: Son – volume: 16 start-page: 378 year: 2012 ident: 10.1074/mcp.RA117.000470_bib72 article-title: NDUFA4 is a subunit of complex IV of the mammalian electron transport chain publication-title: Cell Metabolism doi: 10.1016/j.cmet.2012.07.015 contributor: fullname: Balsa – volume: 13 start-page: 2513 year: 2014 ident: 10.1074/mcp.RA117.000470_bib51 article-title: Accurate proteome-wide label-free quantification by delayed normalization and maximal peptide ratio extraction, termed MaxLFQ publication-title: Mol. Cell. Proteomics doi: 10.1074/mcp.M113.031591 contributor: fullname: Cox – volume: 260 start-page: 10800 year: 1985 ident: 10.1074/mcp.RA117.000470_bib11 article-title: Organization of Krebs tricarboxylic acid cycle enzymes in mitochondria publication-title: J. Biol. Chem doi: 10.1016/S0021-9258(19)85153-0 contributor: fullname: Robinson – volume: 163 start-page: 712 year: 2015 ident: 10.1074/mcp.RA117.000470_bib80 article-title: A human interactome in three quantitative dimensions organized by stoichiometries and abundances publication-title: Cell doi: 10.1016/j.cell.2015.09.053 contributor: fullname: Hein – volume: 74 start-page: 19.23.1 year: 2013 ident: 10.1074/mcp.RA117.000470_bib76 article-title: BioID: A screen for protein–protein interactions publication-title: Curr. Protocols Protein Sci doi: 10.1002/0471140864.ps1923s74 contributor: fullname: Roux – volume: 13 start-page: 2498 year: 2003 ident: 10.1074/mcp.RA117.000470_bib47 article-title: Cytoscape: A software environment for integrated models of biomolecular interaction networks publication-title: Genome Res doi: 10.1101/gr.1239303 contributor: fullname: Shannon – volume: 8 start-page: 15473 year: 2017 ident: 10.1074/mcp.RA117.000470_bib30 article-title: Optimized fragmentation schemes and data analysis strategies for proteome-wide cross-link identification publication-title: Nat Commun doi: 10.1038/ncomms15473 contributor: fullname: Liu – volume: 37 start-page: 854 year: 2010 ident: 10.1074/mcp.RA117.000470_bib61 article-title: Regulation of chromatin architecture by the PWWP domain-containing DNA damage-responsive factor EXPAND1/MUM1 publication-title: Mol. Cell doi: 10.1016/j.molcel.2009.12.040 contributor: fullname: Huen – volume: 211 start-page: 729 year: 2015 ident: 10.1074/mcp.RA117.000470_bib9 article-title: The interactome challenge publication-title: J. Cell Biol doi: 10.1083/jcb.201510108 contributor: fullname: Aitchison – volume: 282 start-page: 11893 year: 2007 ident: 10.1074/mcp.RA117.000470_bib13 article-title: A novel branched-chain amino acid metabolon. Protein–protein interactions in a supramolecular complex publication-title: J. Biol. Chem doi: 10.1074/jbc.M700198200 contributor: fullname: Islam – volume: 13 start-page: 3533 year: 2014 ident: 10.1074/mcp.RA117.000470_bib29 article-title: A new in vivo cross-linking mass spectrometry platform to define protein–protein interactions in living cells publication-title: Mol. Cell. Proteomics doi: 10.1074/mcp.M114.042630 contributor: fullname: Kaake – volume: 450 start-page: 973 year: 2007 ident: 10.1074/mcp.RA117.000470_bib10 article-title: The molecular sociology of the cell publication-title: Nature doi: 10.1038/nature06523 contributor: fullname: Robinson – volume: 36 start-page: 864 year: 2008 ident: 10.1074/mcp.RA117.000470_bib62 article-title: Regulation and function of JunB in cell proliferation publication-title: Biochem. Soc. Trans doi: 10.1042/BST0360864 contributor: fullname: Piechaczyk – volume: 273 start-page: 4872 year: 1998 ident: 10.1074/mcp.RA117.000470_bib84 article-title: The respiratory chain in yeast behaves as a single functional unit publication-title: J. Biol. Chem doi: 10.1074/jbc.273.9.4872 contributor: fullname: Boumans – volume: 277 start-page: 42802 year: 2002 ident: 10.1074/mcp.RA117.000470_bib39 article-title: Effect of Bcl-2 overexpression on mitochondrial structure and function publication-title: J. Biol. Chem doi: 10.1074/jbc.M207765200 contributor: fullname: Kowaltowski – volume: 16 start-page: 2503 year: 2016 ident: 10.1074/mcp.RA117.000470_bib75 article-title: Meet the neighbors: Mapping local protein interactomes by proximity-dependent labeling with BioID publication-title: Proteomics doi: 10.1002/pmic.201600123 contributor: fullname: Varnaitė – volume: 536 start-page: 354 year: 2016 ident: 10.1074/mcp.RA117.000470_bib73 article-title: Structure of mammalian respiratory complex I publication-title: Nature doi: 10.1038/nature19095 contributor: fullname: Zhu – volume: 55 start-page: 332 year: 2014 ident: 10.1074/mcp.RA117.000470_bib77 article-title: Proteomic mapping of the human mitochondrial intermembrane space in live cells via ratiometric APEX tagging publication-title: Mol. Cell doi: 10.1016/j.molcel.2014.06.003 contributor: fullname: Hung – volume: 113 start-page: 8442 year: 2016 ident: 10.1074/mcp.RA117.000470_bib25 article-title: Helical arrays of U-shaped ATP synthase dimers form tubular cristae in ciliate mitochondria publication-title: Proc. Natl. Acad. Sci. U.S.A doi: 10.1073/pnas.1525430113 contributor: fullname: Mühleip – volume: 170 start-page: 1247 year: 2017 ident: 10.1074/mcp.RA117.000470_bib87 article-title: Architecture of human mitochondrial respiratory megacomplex I2III2IV2 publication-title: Cell doi: 10.1016/j.cell.2017.07.050 contributor: fullname: Guo – volume: 1550 start-page: 115 year: 2017 ident: 10.1074/mcp.RA117.000470_bib81 article-title: Parallel exploration of interaction space by BioID and affinity purification coupled to mass spectrometry publication-title: Proteomics doi: 10.1007/978-1-4939-6747-6_10 contributor: fullname: Hesketh – volume: 52 start-page: 2793 year: 2013 ident: 10.1074/mcp.RA117.000470_bib85 article-title: Effect of calcium on the oxidative phosphorylation cascade in skeletal muscle mitochondria publication-title: Biochemistry doi: 10.1021/bi3015983 contributor: fullname: Glancy – volume: 108 start-page: 14121 year: 2011 ident: 10.1074/mcp.RA117.000470_bib23 article-title: Macromolecular organization of ATP synthase and complex I in whole mitochondria publication-title: Proc. Natl. Acad. Sci. U.S.A doi: 10.1073/pnas.1103621108 contributor: fullname: Davies – volume: 44 start-page: D1251 year: 2016 ident: 10.1074/mcp.RA117.000470_bib35 article-title: MitoCarta2.0: an updated inventory of mammalian mitochondrial proteins publication-title: Nucleic Acids Res doi: 10.1093/nar/gkv1003 contributor: fullname: Calvo – volume: 364 start-page: 835 year: 1983 ident: 10.1074/mcp.RA117.000470_bib37 article-title: Different actions of mono- and disaccharides on rat liver mitochondria publication-title: Hoppe-Seyler's Zeitschrift fur physiologische Chemie doi: 10.1515/bchm2.1983.364.2.835 contributor: fullname: Siess – volume: 36 start-page: W5 year: 2008 ident: 10.1074/mcp.RA117.000470_bib45 article-title: NCBI BLAST: A better web interface publication-title: Nucleic Acids Res doi: 10.1093/nar/gkn201 contributor: fullname: Johnson – volume: 41 start-page: 33 year: 2016 ident: 10.1074/mcp.RA117.000470_bib58 article-title: Mitochondrial contact site and cristae organizing system publication-title: Curr. Opin. Cell Biol doi: 10.1016/j.ceb.2016.03.013 contributor: fullname: van der Laan – volume: 35 start-page: 100 year: 2015 ident: 10.1074/mcp.RA117.000470_bib26 article-title: Interrogating the architecture of protein assemblies and protein interaction networks by cross-linking mass spectrometry publication-title: Curr. Opin. Struct. Biol doi: 10.1016/j.sbi.2015.10.006 contributor: fullname: Liu – volume: 104 start-page: 292 year: 2009 ident: 10.1074/mcp.RA117.000470_bib40 article-title: Regulation of intracellular and mitochondrial sodium in health and disease publication-title: Circ. Res doi: 10.1161/CIRCRESAHA.108.189050 contributor: fullname: Murphy – volume: 26 start-page: 804 year: 2016 ident: 10.1074/mcp.RA117.000470_bib74 article-title: Filling the void: Proximity-based labeling of proteins in living cells publication-title: Trends Cell Biol doi: 10.1016/j.tcb.2016.09.004 contributor: fullname: Kim – volume: 41 start-page: 20 year: 2016 ident: 10.1074/mcp.RA117.000470_bib27 article-title: Crosslinking and mass spectrometry: An integrated technology to understand the structure and function of molecular machines publication-title: Trends Biochem. Sci doi: 10.1016/j.tibs.2015.10.008 contributor: fullname: Leitner |
| SSID | ssj0020175 |
| Score | 2.599941 |
| Snippet | Mitochondria exert an immense amount of cytophysiological functions, but the structural basis of most of these processes is still poorly understood. Here we... |
| SourceID | pubmedcentral proquest crossref pubmed elsevier |
| SourceType | Open Access Repository Aggregation Database Index Database Publisher |
| StartPage | 216 |
| SubjectTerms | Animals Comparative analysis Crosslinking Localization Male Mass Spectrometry Mass spectroscopy Mice, Inbred C57BL Mitochondria Mitochondria, Heart - drug effects Mitochondria, Heart - metabolism Mitochondrial Proteins - metabolism Multiprotein Complexes - metabolism Oxidative phosphorylation Phosphorylation Protein interaction Protein Interaction Maps Proteins Proteomics Salts Scientific imaging Sodium Chloride - pharmacology Spectroscopy |
| Title | The interactome of intact mitochondria by cross-linking mass spectrometry provides evidence for coexisting respiratory supercomplexes |
| URI | https://dx.doi.org/10.1074/mcp.RA117.000470 https://www.ncbi.nlm.nih.gov/pubmed/29222160 https://www.proquest.com/docview/2006902915 https://pubmed.ncbi.nlm.nih.gov/PMC5795388 |
| Volume | 17 |
| hasFullText | 1 |
| inHoldings | 1 |
| isFullTextHit | |
| isPrint | |
| link | http://sdu.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwnV1LT9wwEB6xSEi9VC1QuuWhOSAkDtldJ_E6Pq4oiAsIQZG4RfEjAqnJrja7UvcH9H8zdhwoD_XA0UmsWPrGmZn4m28ADsnHW1bINNKcJVEqlImkKE3EbBYzlRUq9qI-5zfi8i77eepkcnhXC-NJ-1o9DOrf1aB-uPfcylmlhx1PbHh1ccKFpH2aDXvQo9iwS9FDlkUmxluRVB7JVHRnk-Qqh5WeDa4njHnVwlS4LnCxJAfJvEDlu27pbdj5mj35jzs6-wKfQxyJk3a9X2HN1puwNakph65WeISe2el_mW_CRttwcrUFf8kq0ClEuNqoaWVxWrohDbCirU2fwtqQRaJaoV9nFForYEUxNvqqTCdvsJivMJTwNWhDX1Kk8Bf11ElrOio1zp8P8bFZzuzcs9ftH9tsw-3Z6a-T8yg0YiAEU7aISiX0WBipRMEKXoyKlC6Lcckp_TJFRhleUmobJ4LRftY04ISPYdyMYqNYESffYL2e1vY7oOSEkBkrKSkdVqXThhlZZgw5UJ1SNNGH4w6HfNbqbeT-nFykOcGXe_jyFr4-JB1QeYgX2jggJ3fwn1l7HaZ52K-Na8Y5lqNYMt6HnRbep9d3JtIH8QL4pwecQvfLO2S4Xqk7GOqPD8_chU9k0FlLE9-D9cV8afeh15jlgbf6Rxb0CPs |
| link.rule.ids | 230,315,729,782,786,887,27933,27934,53800,53802 |
| linkProvider | National Library of Medicine |
| linkToHtml | http://sdu.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwnV1Lb9QwEB7RIgQXHi2PhQJzQEgcshsn8To-rkqrRbQVgiJxs-JHRCWSXW12JfYH8L8ZO06hgDj0FDmOFTnz2TMTz3wD8Ip0vGOVLBLDWZ4UQttEitomzJUZ02Wls0DqM_8kzr6Ub488TQ4fcmFC0L7RF-P2WzNuL76G2MplYyZDnNjkw-khF5LWaTnZgZt0TdPBSY9-FoGM9zSpPJGFGE4nSVlOGrMcf5wxFngLC-HrwGWSVCQLFJX_VEx_G55_xk_-ppCO711zKvfhbrRAcdZ3P4Abrt2D_VlL3nezxdcYYkLDz_Y9uNWXqtzuww_CE3puCZ9VtWgcLmrfpAY2tCnQJtpawjLqLYb5JbEoAzZknWPI5_TECOvVFmPyX4cuVjRFMpzRLDwppw_CxtWv43_sNku3CnHv7rvrHsLn46Pzw3kSSziQ7Au2TmotzFRYqUXFKl6lVUG3xbTm5LjZqiTfMK-Ny3LBaCcw1OD0OSzjNs2sZlWWP4LddtG6J4CSk2TtVEtJjrSuPatM6pi1pHpNQXbICN4M8lPLnqlDhRN2USgSuwpiV73YR5APAlbR0ugtCEWK5D-jDgYsqLjSO1_GcyrTTDI-gsc9LC5fP0BrBOIKYC4f8NzeV3sIJ4HjO-Li6bVHvoTb8_PTE3Xy7uz9M7hDi6Lsg80PYHe92rjnsNPZzYuwcn4CkIoekA |
| linkToPdf | http://sdu.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwpV1Nb9QwEB3RIhAXCi3QpQV8QEgcsomTeB0fV21XRUBV8SFxs-KPqJVINtrsSt0fwP9m7DgLpagHuMWJrSiZZ89M8vwG4DX6eEtLkUea0SzKuTKR4JWJqC1SqopSpV7U5_QzP_tWHJ84mZxNqS9P2tfqctx8r8fN5YXnVra1jgeeWHz-8YhxgfO0iFtTxVtwF4-TdEjUQ66FQGO9VCqLRM6HP5ToMONat-NPU0q9dmHOXS24VKCbpF6m8q_O6Wbw-SeH8jenNNv5j8d5BA9DJEqmfZfHcMc2u7A3bTALr9fkDfHcUP_RfRfu9SUr13vwA3FFnMaE2101ry2ZV66JDVLj4oCLaWMQ00StiX_GKBRnIDVG6cTv63QCCcvFmoRNgB2xobIpwQCa6LkT53RkbLL4RQMg3aq1C89_t1e2ewJfZydfjk6jUMoBMZDTZVQprifcCMVLWrIyKXM8zScVwwTOlAXmiFmlbZpxiiuCxgbDV2IoM0lqFC3T7ClsN_PG7gMRDK1rJkoITKhV5dRlEkuNQResc4xHRvB2sKFse8UO6f-081yi6aU3vexNP4JsMLIMEUcfSUh0KLeMOhzwIMOM71w5z4lIUkHZCJ710NjcfoDXCPg10Gw6OI3v61cQK17rO2Dj-T-PfAX3z49n8sO7s_cH8ADnRdFzzg9he7lY2Rew1ZnVSz95fgJ7dCEQ |
| openUrl | ctx_ver=Z39.88-2004&ctx_enc=info%3Aofi%2Fenc%3AUTF-8&rfr_id=info%3Asid%2Fsummon.serialssolutions.com&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&rft.genre=article&rft.atitle=The+interactome+of+intact+mitochondria+by+cross-linking+mass+spectrometry+provides+evidence+for+coexisting+respiratory+supercomplexes&rft.jtitle=Molecular+%26+cellular+proteomics&rft.au=Liu%2C+Fan&rft.au=L%C3%B6ssl%2C+Philip&rft.au=Rabbitts%2C+Beverley+M.&rft.au=Balaban%2C+Robert+S.&rft.date=2018-02-01&rft.pub=Elsevier+Inc&rft.issn=1535-9476&rft.eissn=1535-9484&rft.volume=17&rft.issue=2&rft.spage=216&rft.epage=232&rft_id=info:doi/10.1074%2Fmcp.RA117.000470&rft.externalDocID=S1535947620322660 |
| thumbnail_l | http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/lc.gif&issn=1535-9476&client=summon |
| thumbnail_m | http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/mc.gif&issn=1535-9476&client=summon |
| thumbnail_s | http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/sc.gif&issn=1535-9476&client=summon |