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/2008/06", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Biological Sciences", 
        "type": "DefinedTerm"
      }, 
      {
        "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"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Adenosine Triphosphatases", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Animals", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Bacterial Proteins", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Caenorhabditis elegans Proteins", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Catalytic Domain", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Databases, Protein", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Drosophila Proteins", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Evolution, Molecular", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Insect Proteins", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Membrane Proteins", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Multigene Family", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Mutagenesis, Insertional", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Nucleoside-Triphosphatase", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Peptides", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Phylogeny", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Predictive Value of Tests", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Protein Structure, Tertiary", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Sequence Homology, Amino Acid", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Zebrafish Proteins", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA", 
          "id": "http://www.grid.ac/institutes/grid.419234.9", 
          "name": [
            "National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Aravind", 
        "givenName": "L", 
        "id": "sg:person.01106662166.38", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01106662166.38"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA", 
          "id": "http://www.grid.ac/institutes/grid.419234.9", 
          "name": [
            "National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Iyer", 
        "givenName": "Lakshminarayan M", 
        "id": "sg:person.012162224357.20", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.012162224357.20"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA", 
          "id": "http://www.grid.ac/institutes/grid.419234.9", 
          "name": [
            "National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Leipe", 
        "givenName": "Detlef D", 
        "id": "sg:person.01145364733.30", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01145364733.30"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA", 
          "id": "http://www.grid.ac/institutes/grid.419234.9", 
          "name": [
            "National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Koonin", 
        "givenName": "Eugene V", 
        "id": "sg:person.01017015051.78", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01017015051.78"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "sg:pub.10.1186/gb-2002-3-2-reviews3003", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1034094865", 
          "https://doi.org/10.1186/gb-2002-3-2-reviews3003"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2004-04-16", 
    "datePublishedReg": "2004-04-16", 
    "description": "BACKGROUND: Recent sequence-structure studies on P-loop-fold NTPases have substantially advanced the existing understanding of their evolution and functional diversity. These studies provide a framework for characterization of novel lineages within this fold and prediction of their functional properties.\nRESULTS: Using sequence profile searches and homology-based structure prediction, we have identified a previously uncharacterized family of P-loop NTPases, which includes the neuronal membrane protein and receptor tyrosine kinase substrate Kidins220/ARMS, which is conserved in animals, the F-plasmid PifA protein involved in phage T7 exclusion, and several uncharacterized bacterial proteins. We refer to these (predicted) NTPases as the KAP family, after Kidins220/ARMS and PifA. The KAP family NTPases are sporadically distributed across a wide phylogenetic range in bacteria but among the eukaryotes are represented only in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side. We show that the KAP family belongs to the same major division of the P-loop NTPase fold with the AAA+, ABC, RecA-like, VirD4-like, PilT-like, and AP/NACHT-like NTPase classes. In addition to the KAP family, we identified another small family of predicted bacterial NTPases, with two transmembrane helices inserted into the P-loop domain. This family is not specifically related to the KAP NTPases, suggesting independent acquisition of the transmembrane helices.\nCONCLUSIONS: We predict that KAP family NTPases function principally in the NTP-dependent dynamics of protein complexes, especially those associated with the intracellular surface of cell membranes. Animal KAP NTPases, including Kidins220/ARMS, are likely to function as NTP-dependent regulators of the assembly of membrane-associated signaling complexes involved in neurite growth and development. One possible function of the prokaryotic KAP NTPases might be in the exclusion of selfish replicons, such as viruses, from the host cells. Phylogenetic analysis and phyletic patterns suggest that the common ancestor of the animals acquired a KAP NTPase via lateral transfer from bacteria. However, an earlier transfer into eukaryotes followed by multiple losses in several eukaryotic lineages cannot be ruled out.", 
    "genre": "article", 
    "id": "sg:pub.10.1186/gb-2004-5-5-r30", 
    "inLanguage": "en", 
    "isAccessibleForFree": true, 
    "isFundedItemOf": [
      {
        "id": "sg:grant.2720300", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.2720255", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.2726029", 
        "type": "MonetaryGrant"
      }
    ], 
    "isPartOf": [
      {
        "id": "sg:journal.1023439", 
        "issn": [
          "1474-760X", 
          "1465-6906"
        ], 
        "name": "Genome Biology", 
        "publisher": "Springer Nature", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "5", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "5"
      }
    ], 
    "keywords": [
      "Kidins220/ARMS", 
      "transmembrane helices", 
      "KAP families", 
      "loop NTPases", 
      "NTPase domain", 
      "loop domain", 
      "uncharacterized bacterial proteins", 
      "sequence profile searches", 
      "wide phylogenetic range", 
      "loop NTPase domain", 
      "neuronal membrane proteins", 
      "homology-based structure prediction", 
      "eukaryotic lineages", 
      "loop NTPase", 
      "uncharacterized family", 
      "phylogenetic range", 
      "phyletic patterns", 
      "phyletic distribution", 
      "novel lineage", 
      "functional diversity", 
      "protein complexes", 
      "transmembrane segments", 
      "common ancestor", 
      "phylogenetic analysis", 
      "NTPases", 
      "membrane proteins", 
      "bacterial proteins", 
      "profile searches", 
      "lateral transfer", 
      "host cells", 
      "possible functions", 
      "independent acquisition", 
      "novel family", 
      "structure prediction", 
      "intracellular side", 
      "eukaryotes", 
      "cell membrane", 
      "intracellular surface", 
      "small family", 
      "protein", 
      "lineages", 
      "helix", 
      "NTPase", 
      "neurite growth", 
      "bacteria", 
      "major divisions", 
      "family", 
      "functional properties", 
      "domain", 
      "multiple losses", 
      "membrane", 
      "VirD4", 
      "pseudogenes", 
      "RecA", 
      "PilT", 
      "ancestor", 
      "complexes", 
      "animals", 
      "regulator", 
      "diversity", 
      "plasmid", 
      "replicon", 
      "unique features", 
      "assembly", 
      "cells", 
      "division", 
      "ARMS", 
      "disruption", 
      "growth", 
      "folds", 
      "evolution", 
      "virus", 
      "characterization", 
      "exclusion", 
      "function", 
      "patterns", 
      "understanding", 
      "transfer", 
      "dynamics", 
      "segments", 
      "development", 
      "loss", 
      "presence", 
      "study", 
      "addition", 
      "analysis", 
      "ABC", 
      "distribution", 
      "acquisition", 
      "prediction", 
      "class", 
      "range", 
      "features", 
      "search", 
      "surface", 
      "side", 
      "early transfer", 
      "properties", 
      "framework", 
      "Recent sequence-structure studies", 
      "sequence-structure studies", 
      "loop-fold NTPases", 
      "receptor tyrosine kinase substrate Kidins220/ARMS", 
      "tyrosine kinase substrate Kidins220/ARMS", 
      "kinase substrate Kidins220/ARMS", 
      "substrate Kidins220/ARMS", 
      "plasmid PifA protein", 
      "PifA protein", 
      "phage T7 exclusion", 
      "T7 exclusion", 
      "PifA.", 
      "KAP family NTPases", 
      "family NTPases", 
      "prokaryotic KAP NTPases", 
      "KAP NTPases", 
      "certain bacterial KAP NTPases", 
      "bacterial KAP NTPases", 
      "transmembrane helices anchor KAP NTPases", 
      "helices anchor KAP NTPases", 
      "anchor KAP NTPases", 
      "same major division", 
      "AP/NACHT-like NTPase classes", 
      "NACHT-like NTPase classes", 
      "NTPase classes", 
      "bacterial NTPases", 
      "NTP-dependent dynamics", 
      "Animal KAP NTPases", 
      "NTP-dependent regulators", 
      "selfish replicons", 
      "KAP NTPase", 
      "unusual phyletic distribution"
    ], 
    "name": "A novel family of P-loop NTPases with an unusual phyletic distribution and transmembrane segments inserted within the NTPase domain", 
    "pagination": "r30-r30", 
    "productId": [
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1029322874"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1186/gb-2004-5-5-r30"
        ]
      }, 
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "15128444"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1186/gb-2004-5-5-r30", 
      "https://app.dimensions.ai/details/publication/pub.1029322874"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2022-01-01T18:14", 
    "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
    "sdPublisher": {
      "name": "Springer Nature - SN SciGraph project", 
      "type": "Organization"
    }, 
    "sdSource": "s3://com-springernature-scigraph/baseset/20220101/entities/gbq_results/article/article_389.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "https://doi.org/10.1186/gb-2004-5-5-r30"
  }
]

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

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

300 TRIPLES      22 PREDICATES      177 URIs      168 LITERALS      26 BLANK NODES