High-resolution structure of the rotor ring of a proton-dependent ATP synthase View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2009-10

AUTHORS

Denys Pogoryelov, Özkan Yildiz, José D Faraldo-Gómez, Thomas Meier

ABSTRACT

The crystal structure of the c-ring from the proton-coupled F1Fo ATP synthase from Spirulina platensis is shown at 2.1-A resolution. The ring includes 15 membrane-embedded c subunits forming an hourglass-shaped assembly. The structure demonstrates that proton translocation across the membrane entails protonation of a conserved glutamate located near the membrane center in the c subunit outer helix. The proton is locked in this site by a precise hydrogen bond network reminiscent of that in Na+-dependent ATP synthases. However, the structure suggests that the different coordination chemistry of the bound proton and the smaller curvature of the outer helix drastically enhance the selectivity of the H+ site against other cations, including H3O+. We propose a model for proton translocation whereby the c subunits remain in this proton-locked state when facing the membrane lipid. Proton exchange would occur in a more hydrophilic and electrostatically distinct environment upon contact with the a subunit interface. More... »

PAGES

1068-1073

Identifiers

URI

http://scigraph.springernature.com/pub.10.1038/nsmb.1678

DOI

http://dx.doi.org/10.1038/nsmb.1678

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1050590368

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/19783985


Indexing Status Check whether this publication has been indexed by Scopus and Web Of Science using the SN Indexing Status Tool
Incoming Citations Browse incoming citations for this publication using opencitations.net

JSON-LD is the canonical representation for SciGraph data.

TIP: You can open this SciGraph record using an external JSON-LD service: JSON-LD Playground Google SDTT

[
  {
    "@context": "https://springernature.github.io/scigraph/jsonld/sgcontext.json", 
    "about": [
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0601", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Biochemistry and Cell Biology", 
        "type": "DefinedTerm"
      }, 
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Biological Sciences", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Amino Acid Sequence", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Bacterial Proton-Translocating ATPases", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Binding Sites", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Biological Transport", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Cations", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Ions", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Lipids", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Molecular Conformation", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Molecular Sequence Data", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Protein Structure, Tertiary", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Protons", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Sequence Homology, Amino Acid", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Sodium", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Spirulina", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Static Electricity", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "Max Planck Institute of Biophysics", 
          "id": "https://www.grid.ac/institutes/grid.419494.5", 
          "name": [
            "Department of Structural Biology, Max-Planck Institute of Biophysics, Frankfurt am Main, Germany."
          ], 
          "type": "Organization"
        }, 
        "familyName": "Pogoryelov", 
        "givenName": "Denys", 
        "id": "sg:person.01115010227.42", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01115010227.42"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Max Planck Institute of Biophysics", 
          "id": "https://www.grid.ac/institutes/grid.419494.5", 
          "name": [
            "Department of Structural Biology, Max-Planck Institute of Biophysics, Frankfurt am Main, Germany."
          ], 
          "type": "Organization"
        }, 
        "familyName": "Yildiz", 
        "givenName": "\u00d6zkan", 
        "id": "sg:person.01041352546.72", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01041352546.72"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Max Planck Institute of Biophysics", 
          "id": "https://www.grid.ac/institutes/grid.419494.5", 
          "name": [
            "Theoretical Molecular Biophysics Group, Max-Planck Institute of Biophysics, Frankfurt am Main, Germany.", 
            "Cluster of Excellence Macromolecular Complexes, Max-Planck Institute of Biophysics, Frankfurt am Main, Germany."
          ], 
          "type": "Organization"
        }, 
        "familyName": "Faraldo-G\u00f3mez", 
        "givenName": "Jos\u00e9 D", 
        "id": "sg:person.01217641072.28", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01217641072.28"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Max Planck Institute of Biophysics", 
          "id": "https://www.grid.ac/institutes/grid.419494.5", 
          "name": [
            "Department of Structural Biology, Max-Planck Institute of Biophysics, Frankfurt am Main, Germany.", 
            "Cluster of Excellence Macromolecular Complexes, Max-Planck Institute of Biophysics, Frankfurt am Main, Germany."
          ], 
          "type": "Organization"
        }, 
        "familyName": "Meier", 
        "givenName": "Thomas", 
        "id": "sg:person.0622061127.26", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0622061127.26"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "https://doi.org/10.1016/j.jmb.2009.05.082", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1000037129"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1432-1033.2004.04235.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1000339142"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1128/jb.00128-06", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1001835036"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1107/s0909049503023938", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1003067022"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.bbabio.2008.05.009", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1004486194"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1074/jbc.m109.002501", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1004586099"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/0005-2728(87)90118-6", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1005425314"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/0005-2728(87)90118-6", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1005425314"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1074/jbc.272.51.32635", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1005983640"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1529/biophysj.103.036962", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1007228402"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s0022-2836(02)00597-1", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1007976589"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s0022-2836(02)01204-4", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1009412093"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s0022-2836(02)01204-4", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1009412093"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nsb0497-269", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1013702320", 
          "https://doi.org/10.1038/nsb0497-269"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1126/science.1110064", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1014153149"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1074/jbc.m800901200", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1014237059"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1107/s0907444906045975", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1016114112"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/0003-9861(91)90265-k", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1017394508"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/0968-0004(88)90005-9", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1017439951"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/0968-0004(88)90005-9", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1017439951"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s0014-5793(01)02837-x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1017865031"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s0014-5793(03)01101-3", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1018085139"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1074/jbc.m803848200", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1019247405"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1432-1033.1994.tb18992.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1019423698"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1107/s0907444904019158", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1020281098"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1432-1033.1987.tb13441.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1025003912"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/0005-2728(93)90063-l", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1025949432"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/0005-2728(93)90063-l", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1025949432"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1023/a:1027339814544", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1025975719", 
          "https://doi.org/10.1023/a:1027339814544"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nsmb.1559", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1029060109", 
          "https://doi.org/10.1038/nsmb.1559"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/386299a0", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1031410497", 
          "https://doi.org/10.1038/386299a0"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nature08145", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1033452681", 
          "https://doi.org/10.1038/nature08145"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nature08145", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1033452681", 
          "https://doi.org/10.1038/nature08145"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/370621a0", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1037493843", 
          "https://doi.org/10.1038/370621a0"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.bpj.2008.12.3910", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1037886502"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1038/sj.embor.7400517", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1037986330"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1038/sj.embor.7400517", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1037986330"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/978-1-60327-058-8_28", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1040087716", 
          "https://doi.org/10.1007/978-1-60327-058-8_28"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s0022-2836(02)00731-3", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1040815052"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1074/jbc.m110301200", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1042797452"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/80975", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1043019305", 
          "https://doi.org/10.1038/80975"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1432-1033.1993.tb17840.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1044306173"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s10863-007-9110-1", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1045387728", 
          "https://doi.org/10.1007/s10863-007-9110-1"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1074/jbc.m109.006916", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1047787045"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/80981", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1050644158", 
          "https://doi.org/10.1038/80981"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1742-4658.2008.06623.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1051436567"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1107/s0021889893005588", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1053164838"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/bi701083v", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1055207534"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/bi701083v", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1055207534"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/bi970831q", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1055213934"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/bi970831q", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1055213934"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/bi980511m", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1055215719"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/bi980511m", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1055215719"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1126/science.1111199", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1062452123"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1126/science.286.5445.1700", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1062567450"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://app.dimensions.ai/details/publication/pub.1078997905", 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://app.dimensions.ai/details/publication/pub.1083282597", 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2009-10", 
    "datePublishedReg": "2009-10-01", 
    "description": "The crystal structure of the c-ring from the proton-coupled F1Fo ATP synthase from Spirulina platensis is shown at 2.1-A resolution. The ring includes 15 membrane-embedded c subunits forming an hourglass-shaped assembly. The structure demonstrates that proton translocation across the membrane entails protonation of a conserved glutamate located near the membrane center in the c subunit outer helix. The proton is locked in this site by a precise hydrogen bond network reminiscent of that in Na+-dependent ATP synthases. However, the structure suggests that the different coordination chemistry of the bound proton and the smaller curvature of the outer helix drastically enhance the selectivity of the H+ site against other cations, including H3O+. We propose a model for proton translocation whereby the c subunits remain in this proton-locked state when facing the membrane lipid. Proton exchange would occur in a more hydrophilic and electrostatically distinct environment upon contact with the a subunit interface.", 
    "genre": "research_article", 
    "id": "sg:pub.10.1038/nsmb.1678", 
    "inLanguage": [
      "en"
    ], 
    "isAccessibleForFree": false, 
    "isPartOf": [
      {
        "id": "sg:journal.1295033", 
        "issn": [
          "1545-9993", 
          "2331-365X"
        ], 
        "name": "Nature Structural & Molecular Biology", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "10", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "16"
      }
    ], 
    "name": "High-resolution structure of the rotor ring of a proton-dependent ATP synthase", 
    "pagination": "1068-1073", 
    "productId": [
      {
        "name": "readcube_id", 
        "type": "PropertyValue", 
        "value": [
          "f0fec47a300a05c1e3d7ebfffa81cb881c7b14e94d15a20e9496c3a1a994c40a"
        ]
      }, 
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "19783985"
        ]
      }, 
      {
        "name": "nlm_unique_id", 
        "type": "PropertyValue", 
        "value": [
          "101186374"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1038/nsmb.1678"
        ]
      }, 
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1050590368"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1038/nsmb.1678", 
      "https://app.dimensions.ai/details/publication/pub.1050590368"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2019-04-11T09:31", 
    "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
    "sdPublisher": {
      "name": "Springer Nature - SN SciGraph project", 
      "type": "Organization"
    }, 
    "sdSource": "s3://com-uberresearch-data-dimensions-target-20181106-alternative/cleanup/v134/2549eaecd7973599484d7c17b260dba0a4ecb94b/merge/v9/a6c9fde33151104705d4d7ff012ea9563521a3ce/jats-lookup/v90/0000000346_0000000346/records_99803_00000003.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "http://www.nature.com/articles/nsmb.1678"
  }
]
 

Download the RDF metadata as:  json-ld nt turtle xml License info

HOW TO GET THIS DATA PROGRAMMATICALLY:

JSON-LD is a popular format for linked data which is fully compatible with JSON.

curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1038/nsmb.1678'

N-Triples is a line-based linked data format ideal for batch operations.

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1038/nsmb.1678'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/nsmb.1678'

RDF/XML is a standard XML format for linked data.

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/nsmb.1678'


 

This table displays all metadata directly associated to this object as RDF triples.

304 TRIPLES      21 PREDICATES      92 URIs      36 LITERALS      24 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1038/nsmb.1678 schema:about N067bf6aa839d42a5a59d3185821c8a52
2 N0999a3c567fd4b2c99136027b5254da7
3 N17bc47108f19447ca9a6e85de68dfb7b
4 N2aa9cf5ab44e41d4bf54951c1687eb82
5 N3917a28d9d9d43f2a9b057819f648d96
6 N3ee9013b7d7147688a2502e4211e1126
7 N457bbdb1ccfc4b6b9910eaeaca860620
8 N5004221f4a114526963600d3f78a8a8d
9 N5a1fb85b72d44dba931a10f87e8b890f
10 N7aabcd7b42a54810a08fe696dcbdc1a1
11 Na8fb07247b744f559839b0320da6eb62
12 Nc303e91327634676a960570f92859a31
13 Nd0789b9c6b5d44d3a63a6e242e8b6cb7
14 Ndecd0f856a2b4ce0a696c374033a5733
15 Ne3d5f17749ba4b95a55d8f5e279d20e6
16 anzsrc-for:06
17 anzsrc-for:0601
18 schema:author Nfb336738af62433089bf61afb144380d
19 schema:citation sg:pub.10.1007/978-1-60327-058-8_28
20 sg:pub.10.1007/s10863-007-9110-1
21 sg:pub.10.1023/a:1027339814544
22 sg:pub.10.1038/370621a0
23 sg:pub.10.1038/386299a0
24 sg:pub.10.1038/80975
25 sg:pub.10.1038/80981
26 sg:pub.10.1038/nature08145
27 sg:pub.10.1038/nsb0497-269
28 sg:pub.10.1038/nsmb.1559
29 https://app.dimensions.ai/details/publication/pub.1078997905
30 https://app.dimensions.ai/details/publication/pub.1083282597
31 https://doi.org/10.1016/0003-9861(91)90265-k
32 https://doi.org/10.1016/0005-2728(87)90118-6
33 https://doi.org/10.1016/0005-2728(93)90063-l
34 https://doi.org/10.1016/0968-0004(88)90005-9
35 https://doi.org/10.1016/j.bbabio.2008.05.009
36 https://doi.org/10.1016/j.bpj.2008.12.3910
37 https://doi.org/10.1016/j.jmb.2009.05.082
38 https://doi.org/10.1016/s0014-5793(01)02837-x
39 https://doi.org/10.1016/s0014-5793(03)01101-3
40 https://doi.org/10.1016/s0022-2836(02)00597-1
41 https://doi.org/10.1016/s0022-2836(02)00731-3
42 https://doi.org/10.1016/s0022-2836(02)01204-4
43 https://doi.org/10.1021/bi701083v
44 https://doi.org/10.1021/bi970831q
45 https://doi.org/10.1021/bi980511m
46 https://doi.org/10.1038/sj.embor.7400517
47 https://doi.org/10.1074/jbc.272.51.32635
48 https://doi.org/10.1074/jbc.m109.002501
49 https://doi.org/10.1074/jbc.m109.006916
50 https://doi.org/10.1074/jbc.m110301200
51 https://doi.org/10.1074/jbc.m800901200
52 https://doi.org/10.1074/jbc.m803848200
53 https://doi.org/10.1107/s0021889893005588
54 https://doi.org/10.1107/s0907444904019158
55 https://doi.org/10.1107/s0907444906045975
56 https://doi.org/10.1107/s0909049503023938
57 https://doi.org/10.1111/j.1432-1033.1987.tb13441.x
58 https://doi.org/10.1111/j.1432-1033.1993.tb17840.x
59 https://doi.org/10.1111/j.1432-1033.1994.tb18992.x
60 https://doi.org/10.1111/j.1432-1033.2004.04235.x
61 https://doi.org/10.1111/j.1742-4658.2008.06623.x
62 https://doi.org/10.1126/science.1110064
63 https://doi.org/10.1126/science.1111199
64 https://doi.org/10.1126/science.286.5445.1700
65 https://doi.org/10.1128/jb.00128-06
66 https://doi.org/10.1529/biophysj.103.036962
67 schema:datePublished 2009-10
68 schema:datePublishedReg 2009-10-01
69 schema:description The crystal structure of the c-ring from the proton-coupled F1Fo ATP synthase from Spirulina platensis is shown at 2.1-A resolution. The ring includes 15 membrane-embedded c subunits forming an hourglass-shaped assembly. The structure demonstrates that proton translocation across the membrane entails protonation of a conserved glutamate located near the membrane center in the c subunit outer helix. The proton is locked in this site by a precise hydrogen bond network reminiscent of that in Na+-dependent ATP synthases. However, the structure suggests that the different coordination chemistry of the bound proton and the smaller curvature of the outer helix drastically enhance the selectivity of the H+ site against other cations, including H3O+. We propose a model for proton translocation whereby the c subunits remain in this proton-locked state when facing the membrane lipid. Proton exchange would occur in a more hydrophilic and electrostatically distinct environment upon contact with the a subunit interface.
70 schema:genre research_article
71 schema:inLanguage en
72 schema:isAccessibleForFree false
73 schema:isPartOf N5e777ecc36ba445b9f809e51396d870d
74 Nffcc1a36ab4b456c8bc71d17fb1b8eb8
75 sg:journal.1295033
76 schema:name High-resolution structure of the rotor ring of a proton-dependent ATP synthase
77 schema:pagination 1068-1073
78 schema:productId N4d3f7141278948ce8a7acec23273651d
79 N808b9330665043b4b29f25d79def49d2
80 N8e1227dc48bf450cbb5d735b29e28b1e
81 Nd992b0c3b2e144f98186162f9f2b0846
82 Ne0852779b0d3456b8766ce18c0d8babb
83 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050590368
84 https://doi.org/10.1038/nsmb.1678
85 schema:sdDatePublished 2019-04-11T09:31
86 schema:sdLicense https://scigraph.springernature.com/explorer/license/
87 schema:sdPublisher N6b5f81dadd224e9e8fd3660a531d9b89
88 schema:url http://www.nature.com/articles/nsmb.1678
89 sgo:license sg:explorer/license/
90 sgo:sdDataset articles
91 rdf:type schema:ScholarlyArticle
92 N067bf6aa839d42a5a59d3185821c8a52 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
93 schema:name Molecular Conformation
94 rdf:type schema:DefinedTerm
95 N0999a3c567fd4b2c99136027b5254da7 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
96 schema:name Spirulina
97 rdf:type schema:DefinedTerm
98 N17bc47108f19447ca9a6e85de68dfb7b schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
99 schema:name Biological Transport
100 rdf:type schema:DefinedTerm
101 N2aa9cf5ab44e41d4bf54951c1687eb82 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
102 schema:name Protons
103 rdf:type schema:DefinedTerm
104 N3917a28d9d9d43f2a9b057819f648d96 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
105 schema:name Sequence Homology, Amino Acid
106 rdf:type schema:DefinedTerm
107 N3ee9013b7d7147688a2502e4211e1126 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
108 schema:name Static Electricity
109 rdf:type schema:DefinedTerm
110 N457bbdb1ccfc4b6b9910eaeaca860620 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
111 schema:name Bacterial Proton-Translocating ATPases
112 rdf:type schema:DefinedTerm
113 N4d3f7141278948ce8a7acec23273651d schema:name pubmed_id
114 schema:value 19783985
115 rdf:type schema:PropertyValue
116 N5004221f4a114526963600d3f78a8a8d schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
117 schema:name Binding Sites
118 rdf:type schema:DefinedTerm
119 N5a1fb85b72d44dba931a10f87e8b890f schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
120 schema:name Molecular Sequence Data
121 rdf:type schema:DefinedTerm
122 N5e777ecc36ba445b9f809e51396d870d schema:volumeNumber 16
123 rdf:type schema:PublicationVolume
124 N6b5f81dadd224e9e8fd3660a531d9b89 schema:name Springer Nature - SN SciGraph project
125 rdf:type schema:Organization
126 N7aabcd7b42a54810a08fe696dcbdc1a1 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
127 schema:name Sodium
128 rdf:type schema:DefinedTerm
129 N7c32cd0d9df943fea094542a60032bf0 rdf:first sg:person.01217641072.28
130 rdf:rest Ndd57580a129e46dfa22186260f0c7325
131 N808b9330665043b4b29f25d79def49d2 schema:name dimensions_id
132 schema:value pub.1050590368
133 rdf:type schema:PropertyValue
134 N8e1227dc48bf450cbb5d735b29e28b1e schema:name nlm_unique_id
135 schema:value 101186374
136 rdf:type schema:PropertyValue
137 Na8fb07247b744f559839b0320da6eb62 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
138 schema:name Cations
139 rdf:type schema:DefinedTerm
140 Nbf40a193e0f342d5acd447e176ee3919 rdf:first sg:person.01041352546.72
141 rdf:rest N7c32cd0d9df943fea094542a60032bf0
142 Nc303e91327634676a960570f92859a31 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
143 schema:name Amino Acid Sequence
144 rdf:type schema:DefinedTerm
145 Nd0789b9c6b5d44d3a63a6e242e8b6cb7 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
146 schema:name Protein Structure, Tertiary
147 rdf:type schema:DefinedTerm
148 Nd992b0c3b2e144f98186162f9f2b0846 schema:name doi
149 schema:value 10.1038/nsmb.1678
150 rdf:type schema:PropertyValue
151 Ndd57580a129e46dfa22186260f0c7325 rdf:first sg:person.0622061127.26
152 rdf:rest rdf:nil
153 Ndecd0f856a2b4ce0a696c374033a5733 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
154 schema:name Ions
155 rdf:type schema:DefinedTerm
156 Ne0852779b0d3456b8766ce18c0d8babb schema:name readcube_id
157 schema:value f0fec47a300a05c1e3d7ebfffa81cb881c7b14e94d15a20e9496c3a1a994c40a
158 rdf:type schema:PropertyValue
159 Ne3d5f17749ba4b95a55d8f5e279d20e6 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
160 schema:name Lipids
161 rdf:type schema:DefinedTerm
162 Nfb336738af62433089bf61afb144380d rdf:first sg:person.01115010227.42
163 rdf:rest Nbf40a193e0f342d5acd447e176ee3919
164 Nffcc1a36ab4b456c8bc71d17fb1b8eb8 schema:issueNumber 10
165 rdf:type schema:PublicationIssue
166 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
167 schema:name Biological Sciences
168 rdf:type schema:DefinedTerm
169 anzsrc-for:0601 schema:inDefinedTermSet anzsrc-for:
170 schema:name Biochemistry and Cell Biology
171 rdf:type schema:DefinedTerm
172 sg:journal.1295033 schema:issn 1545-9993
173 2331-365X
174 schema:name Nature Structural & Molecular Biology
175 rdf:type schema:Periodical
176 sg:person.01041352546.72 schema:affiliation https://www.grid.ac/institutes/grid.419494.5
177 schema:familyName Yildiz
178 schema:givenName Özkan
179 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01041352546.72
180 rdf:type schema:Person
181 sg:person.01115010227.42 schema:affiliation https://www.grid.ac/institutes/grid.419494.5
182 schema:familyName Pogoryelov
183 schema:givenName Denys
184 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01115010227.42
185 rdf:type schema:Person
186 sg:person.01217641072.28 schema:affiliation https://www.grid.ac/institutes/grid.419494.5
187 schema:familyName Faraldo-Gómez
188 schema:givenName José D
189 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01217641072.28
190 rdf:type schema:Person
191 sg:person.0622061127.26 schema:affiliation https://www.grid.ac/institutes/grid.419494.5
192 schema:familyName Meier
193 schema:givenName Thomas
194 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0622061127.26
195 rdf:type schema:Person
196 sg:pub.10.1007/978-1-60327-058-8_28 schema:sameAs https://app.dimensions.ai/details/publication/pub.1040087716
197 https://doi.org/10.1007/978-1-60327-058-8_28
198 rdf:type schema:CreativeWork
199 sg:pub.10.1007/s10863-007-9110-1 schema:sameAs https://app.dimensions.ai/details/publication/pub.1045387728
200 https://doi.org/10.1007/s10863-007-9110-1
201 rdf:type schema:CreativeWork
202 sg:pub.10.1023/a:1027339814544 schema:sameAs https://app.dimensions.ai/details/publication/pub.1025975719
203 https://doi.org/10.1023/a:1027339814544
204 rdf:type schema:CreativeWork
205 sg:pub.10.1038/370621a0 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037493843
206 https://doi.org/10.1038/370621a0
207 rdf:type schema:CreativeWork
208 sg:pub.10.1038/386299a0 schema:sameAs https://app.dimensions.ai/details/publication/pub.1031410497
209 https://doi.org/10.1038/386299a0
210 rdf:type schema:CreativeWork
211 sg:pub.10.1038/80975 schema:sameAs https://app.dimensions.ai/details/publication/pub.1043019305
212 https://doi.org/10.1038/80975
213 rdf:type schema:CreativeWork
214 sg:pub.10.1038/80981 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050644158
215 https://doi.org/10.1038/80981
216 rdf:type schema:CreativeWork
217 sg:pub.10.1038/nature08145 schema:sameAs https://app.dimensions.ai/details/publication/pub.1033452681
218 https://doi.org/10.1038/nature08145
219 rdf:type schema:CreativeWork
220 sg:pub.10.1038/nsb0497-269 schema:sameAs https://app.dimensions.ai/details/publication/pub.1013702320
221 https://doi.org/10.1038/nsb0497-269
222 rdf:type schema:CreativeWork
223 sg:pub.10.1038/nsmb.1559 schema:sameAs https://app.dimensions.ai/details/publication/pub.1029060109
224 https://doi.org/10.1038/nsmb.1559
225 rdf:type schema:CreativeWork
226 https://app.dimensions.ai/details/publication/pub.1078997905 schema:CreativeWork
227 https://app.dimensions.ai/details/publication/pub.1083282597 schema:CreativeWork
228 https://doi.org/10.1016/0003-9861(91)90265-k schema:sameAs https://app.dimensions.ai/details/publication/pub.1017394508
229 rdf:type schema:CreativeWork
230 https://doi.org/10.1016/0005-2728(87)90118-6 schema:sameAs https://app.dimensions.ai/details/publication/pub.1005425314
231 rdf:type schema:CreativeWork
232 https://doi.org/10.1016/0005-2728(93)90063-l schema:sameAs https://app.dimensions.ai/details/publication/pub.1025949432
233 rdf:type schema:CreativeWork
234 https://doi.org/10.1016/0968-0004(88)90005-9 schema:sameAs https://app.dimensions.ai/details/publication/pub.1017439951
235 rdf:type schema:CreativeWork
236 https://doi.org/10.1016/j.bbabio.2008.05.009 schema:sameAs https://app.dimensions.ai/details/publication/pub.1004486194
237 rdf:type schema:CreativeWork
238 https://doi.org/10.1016/j.bpj.2008.12.3910 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037886502
239 rdf:type schema:CreativeWork
240 https://doi.org/10.1016/j.jmb.2009.05.082 schema:sameAs https://app.dimensions.ai/details/publication/pub.1000037129
241 rdf:type schema:CreativeWork
242 https://doi.org/10.1016/s0014-5793(01)02837-x schema:sameAs https://app.dimensions.ai/details/publication/pub.1017865031
243 rdf:type schema:CreativeWork
244 https://doi.org/10.1016/s0014-5793(03)01101-3 schema:sameAs https://app.dimensions.ai/details/publication/pub.1018085139
245 rdf:type schema:CreativeWork
246 https://doi.org/10.1016/s0022-2836(02)00597-1 schema:sameAs https://app.dimensions.ai/details/publication/pub.1007976589
247 rdf:type schema:CreativeWork
248 https://doi.org/10.1016/s0022-2836(02)00731-3 schema:sameAs https://app.dimensions.ai/details/publication/pub.1040815052
249 rdf:type schema:CreativeWork
250 https://doi.org/10.1016/s0022-2836(02)01204-4 schema:sameAs https://app.dimensions.ai/details/publication/pub.1009412093
251 rdf:type schema:CreativeWork
252 https://doi.org/10.1021/bi701083v schema:sameAs https://app.dimensions.ai/details/publication/pub.1055207534
253 rdf:type schema:CreativeWork
254 https://doi.org/10.1021/bi970831q schema:sameAs https://app.dimensions.ai/details/publication/pub.1055213934
255 rdf:type schema:CreativeWork
256 https://doi.org/10.1021/bi980511m schema:sameAs https://app.dimensions.ai/details/publication/pub.1055215719
257 rdf:type schema:CreativeWork
258 https://doi.org/10.1038/sj.embor.7400517 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037986330
259 rdf:type schema:CreativeWork
260 https://doi.org/10.1074/jbc.272.51.32635 schema:sameAs https://app.dimensions.ai/details/publication/pub.1005983640
261 rdf:type schema:CreativeWork
262 https://doi.org/10.1074/jbc.m109.002501 schema:sameAs https://app.dimensions.ai/details/publication/pub.1004586099
263 rdf:type schema:CreativeWork
264 https://doi.org/10.1074/jbc.m109.006916 schema:sameAs https://app.dimensions.ai/details/publication/pub.1047787045
265 rdf:type schema:CreativeWork
266 https://doi.org/10.1074/jbc.m110301200 schema:sameAs https://app.dimensions.ai/details/publication/pub.1042797452
267 rdf:type schema:CreativeWork
268 https://doi.org/10.1074/jbc.m800901200 schema:sameAs https://app.dimensions.ai/details/publication/pub.1014237059
269 rdf:type schema:CreativeWork
270 https://doi.org/10.1074/jbc.m803848200 schema:sameAs https://app.dimensions.ai/details/publication/pub.1019247405
271 rdf:type schema:CreativeWork
272 https://doi.org/10.1107/s0021889893005588 schema:sameAs https://app.dimensions.ai/details/publication/pub.1053164838
273 rdf:type schema:CreativeWork
274 https://doi.org/10.1107/s0907444904019158 schema:sameAs https://app.dimensions.ai/details/publication/pub.1020281098
275 rdf:type schema:CreativeWork
276 https://doi.org/10.1107/s0907444906045975 schema:sameAs https://app.dimensions.ai/details/publication/pub.1016114112
277 rdf:type schema:CreativeWork
278 https://doi.org/10.1107/s0909049503023938 schema:sameAs https://app.dimensions.ai/details/publication/pub.1003067022
279 rdf:type schema:CreativeWork
280 https://doi.org/10.1111/j.1432-1033.1987.tb13441.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1025003912
281 rdf:type schema:CreativeWork
282 https://doi.org/10.1111/j.1432-1033.1993.tb17840.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1044306173
283 rdf:type schema:CreativeWork
284 https://doi.org/10.1111/j.1432-1033.1994.tb18992.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1019423698
285 rdf:type schema:CreativeWork
286 https://doi.org/10.1111/j.1432-1033.2004.04235.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1000339142
287 rdf:type schema:CreativeWork
288 https://doi.org/10.1111/j.1742-4658.2008.06623.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1051436567
289 rdf:type schema:CreativeWork
290 https://doi.org/10.1126/science.1110064 schema:sameAs https://app.dimensions.ai/details/publication/pub.1014153149
291 rdf:type schema:CreativeWork
292 https://doi.org/10.1126/science.1111199 schema:sameAs https://app.dimensions.ai/details/publication/pub.1062452123
293 rdf:type schema:CreativeWork
294 https://doi.org/10.1126/science.286.5445.1700 schema:sameAs https://app.dimensions.ai/details/publication/pub.1062567450
295 rdf:type schema:CreativeWork
296 https://doi.org/10.1128/jb.00128-06 schema:sameAs https://app.dimensions.ai/details/publication/pub.1001835036
297 rdf:type schema:CreativeWork
298 https://doi.org/10.1529/biophysj.103.036962 schema:sameAs https://app.dimensions.ai/details/publication/pub.1007228402
299 rdf:type schema:CreativeWork
300 https://www.grid.ac/institutes/grid.419494.5 schema:alternateName Max Planck Institute of Biophysics
301 schema:name Cluster of Excellence Macromolecular Complexes, Max-Planck Institute of Biophysics, Frankfurt am Main, Germany.
302 Department of Structural Biology, Max-Planck Institute of Biophysics, Frankfurt am Main, Germany.
303 Theoretical Molecular Biophysics Group, Max-Planck Institute of Biophysics, Frankfurt am Main, Germany.
304 rdf:type schema:Organization
 




Preview window. Press ESC to close (or click here)


...