data/uniprot.xsd

<?xml version="1.0" encoding="UTF-8"?>
<!-- *****************************************************************************
  UniProt Knowledgebase Version: $Revision$ Date: $Date$ Copyright (c) 2011
  UniProt consortium All rights reserved. ******************************************************************************* -->
<xs:schema targetNamespace="http://uniprot.org/uniprot"
  xmlns:xs="http://www.w3.org/2001/XMLSchema"
  xmlns="http://uniprot.org/uniprot" elementFormDefault="qualified">
  <!-- XML Schema definition for the UniProtKB XML format Tested with: -XSV
    (XML Schema Validator), http://www.w3.org/2001/03/webdata/xsv -->


  <!-- Root element definition begins -->
  <xs:element name="uniprot">
    <xs:annotation>
      <xs:documentation>Describes a collection of UniProtKB entries.</xs:documentation>
    </xs:annotation>
    <xs:complexType>
      <xs:sequence>
        <xs:element ref="entry" maxOccurs="unbounded" />
        <xs:element ref="copyright" minOccurs="0" />
      </xs:sequence>
    </xs:complexType>
  </xs:element>
  <!-- Root element definition ends -->

  <!-- Entry definition begins -->
  <xs:element name="entry">
    <xs:annotation>
      <xs:documentation>Describes a UniProtKB entry.</xs:documentation>
    </xs:annotation>
    <xs:complexType>
      <xs:sequence>
        <xs:element name="accession" type="xs:string"
          maxOccurs="unbounded" />
        <xs:element name="name" type="xs:string"
          maxOccurs="unbounded" />
        <xs:element name="protein" type="proteinType" />
        <xs:element name="gene" type="geneType" minOccurs="0"
          maxOccurs="unbounded" />
        <xs:element name="organism" type="organismType" />
        <xs:element name="organismHost" type="organismType"
          minOccurs="0" maxOccurs="unbounded" />
        <xs:element name="geneLocation" type="geneLocationType"
          minOccurs="0" maxOccurs="unbounded" />
        <xs:element name="reference" type="referenceType"
          maxOccurs="unbounded" />
        <xs:element name="comment" type="commentType"
          nillable="true" minOccurs="0" maxOccurs="unbounded" />
        <xs:element name="dbReference" type="dbReferenceType"
          minOccurs="0" maxOccurs="unbounded" />
        <xs:element name="proteinExistence"
          type="proteinExistenceType" />
        <xs:element name="keyword" type="keywordType"
          minOccurs="0" maxOccurs="unbounded" />
        <xs:element name="feature" type="featureType"
          minOccurs="0" maxOccurs="unbounded" />
        <xs:element name="evidence" type="evidenceType"
          minOccurs="0" maxOccurs="unbounded" />
        <xs:element name="sequence" type="sequenceType" />
      </xs:sequence>
      <xs:attribute name="dataset" use="required">
        <xs:simpleType>
          <xs:restriction base="xs:string">
            <xs:enumeration value="Swiss-Prot" />
            <xs:enumeration value="TrEMBL" />
          </xs:restriction>
        </xs:simpleType>
      </xs:attribute>
      <xs:attribute name="created" type="xs:date"
        use="required" />
      <xs:attribute name="modified" type="xs:date"
        use="required" />
      <xs:attribute name="version" type="xs:int"
        use="required" />
    </xs:complexType>
  </xs:element>
  <!-- Entry definition ends -->

  <xs:element name="copyright" type="xs:string" />

  <!-- Protein names definition begins -->
  <xs:complexType name="proteinType">
    <xs:annotation>
      <xs:documentation>Describes the names for the protein and parts
        thereof.
        Equivalent to the flat file DE-line.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:group ref="proteinNameGroup" />
      <xs:element name="domain" minOccurs="0"
        maxOccurs="unbounded">
        <xs:annotation>
          <xs:documentation>Describes names of "domains".
            Equivalent to the
            flat file DE-line Includes: section.</xs:documentation>
        </xs:annotation>
        <xs:complexType>
          <xs:group ref="proteinNameGroup" />
        </xs:complexType>
      </xs:element>
      <xs:element name="component" minOccurs="0"
        maxOccurs="unbounded">
        <xs:annotation>
          <xs:documentation>Describes names of processed products.
            Equivalent
            to the flat file DE-line Contains: section.</xs:documentation>
        </xs:annotation>
        <xs:complexType>
          <xs:group ref="proteinNameGroup" />
        </xs:complexType>
      </xs:element>
    </xs:sequence>
  </xs:complexType>
  <xs:group name="proteinNameGroup">
    <xs:sequence>
      <xs:element name="recommendedName" minOccurs="0">
        <xs:complexType>
          <xs:sequence>
            <xs:element name="fullName" type="evidencedStringType" />
            <xs:element name="shortName" type="evidencedStringType"
              minOccurs="0" maxOccurs="unbounded" />
            <xs:element name="ecNumber" type="evidencedStringType"
              minOccurs="0" maxOccurs="unbounded" />
          </xs:sequence>
          <!-- xs:attribute name="ref" type="xs:string" use="optional"/ -->
        </xs:complexType>
      </xs:element>
      <xs:element name="alternativeName" minOccurs="0"
        maxOccurs="unbounded">
        <xs:complexType>
          <xs:sequence>
            <xs:element name="fullName" type="evidencedStringType"
              minOccurs="0" />
            <xs:element name="shortName" type="evidencedStringType"
              minOccurs="0" maxOccurs="unbounded" />
            <xs:element name="ecNumber" type="evidencedStringType"
              minOccurs="0" maxOccurs="unbounded" />
          </xs:sequence>
          <!-- xs:attribute name="ref" type="xs:string" use="optional"/ -->
        </xs:complexType>
      </xs:element>
      <xs:element name="submittedName" minOccurs="0"
        maxOccurs="unbounded">
        <xs:complexType>
          <xs:sequence>
            <xs:element name="fullName" type="evidencedStringType" />
            <xs:element name="ecNumber" type="evidencedStringType"
              minOccurs="0" maxOccurs="unbounded" />
          </xs:sequence>
          <!-- xs:attribute name="ref" type="xs:string" use="optional"/ -->
        </xs:complexType>
      </xs:element>
      <xs:element name="allergenName" type="evidencedStringType"
        minOccurs="0" />
      <xs:element name="biotechName" type="evidencedStringType"
        minOccurs="0" />
      <xs:element name="cdAntigenName"
        type="evidencedStringType" minOccurs="0" maxOccurs="unbounded" />
      <xs:element name="innName" type="evidencedStringType"
        minOccurs="0" maxOccurs="unbounded" />
    </xs:sequence>
  </xs:group>
  <!-- Protein names definition ends -->

  <!-- Gene names definition begins -->
  <xs:complexType name="geneType">
    <xs:annotation>
      <xs:documentation>Describes a gene.
        Equivalent to the flat file
        GN-line.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="name" type="geneNameType"
        maxOccurs="unbounded" />
    </xs:sequence>
  </xs:complexType>
  <xs:complexType name="geneNameType">
    <xs:annotation>
      <xs:documentation>Describes different types of gene designations.
        Equivalent to the flat file GN-line.</xs:documentation>
    </xs:annotation>
    <xs:simpleContent>
      <xs:extension base="xs:string">
        <xs:attribute name="evidence" type="intListType"
          use="optional" />
        <xs:attribute name="type" use="required">
          <xs:simpleType>
            <xs:restriction base="xs:string">
              <xs:enumeration value="primary" />
              <xs:enumeration value="synonym" />
              <xs:enumeration value="ordered locus" />
              <xs:enumeration value="ORF" />
            </xs:restriction>
          </xs:simpleType>
        </xs:attribute>
      </xs:extension>
    </xs:simpleContent>
  </xs:complexType>
  <!-- Gene names definition ends -->

  <!-- Organism definition begins -->
  <xs:complexType name="organismType">
    <xs:annotation>
      <xs:documentation>Describes the source organism.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="name" type="organismNameType"
        maxOccurs="unbounded">
        <xs:annotation>
          <xs:documentation>Describes the names of the source organism.
            Equivalent to the flat file OS-line.</xs:documentation>
        </xs:annotation>
      </xs:element>
      <xs:element name="dbReference" type="dbReferenceType"
        maxOccurs="unbounded">
        <xs:annotation>
          <xs:documentation>Describes a cross-reference to the NCBI taxonomy
            database.
            Equivalent to the flat file OX-line.</xs:documentation>
        </xs:annotation>
      </xs:element>
      <xs:element name="lineage" minOccurs="0">
        <xs:annotation>
          <xs:documentation>Describes the lineage of the source organism.
            Equivalent to the flat file OC-line.</xs:documentation>
        </xs:annotation>
        <xs:complexType>
          <xs:sequence>
            <xs:element name="taxon" type="xs:string"
              maxOccurs="unbounded" />
          </xs:sequence>
        </xs:complexType>
      </xs:element>
    </xs:sequence>
    <xs:attribute name="evidence" type="intListType"
      use="optional" />
  </xs:complexType>
  <xs:complexType name="organismNameType">
    <xs:annotation>
      <xs:documentation>Describes different types of source organism names.</xs:documentation>
    </xs:annotation>
    <xs:simpleContent>
      <xs:extension base="xs:string">
        <xs:attribute name="type" use="required">
          <xs:simpleType>
            <xs:restriction base="xs:string">
              <xs:enumeration value="common" />
              <xs:enumeration value="full" />
              <xs:enumeration value="scientific" />
              <xs:enumeration value="synonym" />
              <xs:enumeration value="abbreviation" />
            </xs:restriction>
          </xs:simpleType>
        </xs:attribute>
      </xs:extension>
    </xs:simpleContent>
  </xs:complexType>
  <!-- Organism definition ends -->

  <!-- Gene location definition begins -->
  <xs:complexType name="geneLocationType">
    <xs:annotation>
      <xs:documentation>Describes non-nuclear gene locations (organelles
        and plasmids).
        Equivalent to the flat file OG-line.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="name" type="statusType" minOccurs="0"
        maxOccurs="unbounded" />
    </xs:sequence>
    <xs:attribute name="type" use="required">
      <xs:simpleType>
        <xs:restriction base="xs:string">
          <xs:enumeration value="apicoplast" />
          <xs:enumeration value="chloroplast" />
          <xs:enumeration value="organellar chromatophore" />
          <xs:enumeration value="cyanelle" />
          <xs:enumeration value="hydrogenosome" />
          <xs:enumeration value="mitochondrion" />
          <xs:enumeration value="non-photosynthetic plastid" />
          <xs:enumeration value="nucleomorph" />
          <xs:enumeration value="plasmid" />
          <xs:enumeration value="plastid" />
        </xs:restriction>
      </xs:simpleType>
    </xs:attribute>
    <xs:attribute name="evidence" type="intListType"
      use="optional" />
  </xs:complexType>
  <xs:complexType name="statusType">
    <xs:annotation>
      <xs:documentation>Indicates whether the name of a plasmid is known or
        unknown.</xs:documentation>
    </xs:annotation>
    <xs:simpleContent>
      <xs:extension base="xs:string">
        <xs:attribute name="status" use="optional"
          default="known">
          <xs:simpleType>
            <xs:restriction base="xs:string">
              <xs:enumeration value="known" />
              <xs:enumeration value="unknown" />
            </xs:restriction>
          </xs:simpleType>
        </xs:attribute>
      </xs:extension>
    </xs:simpleContent>
  </xs:complexType>
  <!-- Gene location definition ends -->

  <!-- Reference definition begins -->
  <xs:complexType name="referenceType">
    <xs:annotation>
      <xs:documentation>Describes a citation and a summary of its content.
        Equivalent to the flat file RN-, RP-, RC-, RX-, RG-, RA-, RT- and
        RL-lines.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="citation" type="citationType" />
      <xs:group ref="sptrCitationGroup" />
    </xs:sequence>
    <xs:attribute name="evidence" type="intListType"
      use="optional" />
    <xs:attribute name="key" type="xs:string" use="required" />
  </xs:complexType>
  <!-- Reference definition ends -->

  <!-- Citation definition begins -->
  <xs:complexType name="citationType">
    <xs:annotation>
      <xs:documentation>Describes different types of citations.
        Equivalent
        to the flat file RX-, RG-, RA-, RT- and RL-lines.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="title" type="xs:string" minOccurs="0">
        <xs:annotation>
          <xs:documentation>Describes the title of a citation.
            Equivalent to
            the flat file RT-line.</xs:documentation>
        </xs:annotation>
      </xs:element>
      <xs:element name="editorList" type="nameListType"
        minOccurs="0">
        <xs:annotation>
          <xs:documentation>Describes the editors of a book (only used for
            books).
            Equivalent to part of the flat file RL-line of books.</xs:documentation>
        </xs:annotation>
      </xs:element>
      <xs:element name="authorList" type="nameListType"
        minOccurs="0">
        <xs:annotation>
          <xs:documentation>Describes the authors of a citation.
            Equivalent to
            the flat file RA-line.</xs:documentation>
        </xs:annotation>
      </xs:element>
      <xs:element name="locator" type="xs:string" minOccurs="0">
        <xs:annotation>
          <xs:documentation>Describes the location (URL) of an online journal
            article.
            No flat file equivalent.</xs:documentation>
        </xs:annotation>
      </xs:element>
      <xs:element name="dbReference" type="dbReferenceType"
        minOccurs="0" maxOccurs="unbounded">
        <xs:annotation>
          <xs:documentation>Describes cross-references to bibliography
            databases (MEDLINE, PubMed, AGRICOLA) or other online resources
            (DOI).
            Equivalent to the flat file RX-line.</xs:documentation>
        </xs:annotation>
      </xs:element>
    </xs:sequence>
    <xs:attribute name="type" use="required">
      <xs:annotation>
        <xs:documentation>Describes the type of a citation.</xs:documentation>
      </xs:annotation>
      <xs:simpleType>
        <xs:restriction base="xs:string">
          <xs:enumeration value="book" />
          <xs:enumeration value="journal article" />
          <xs:enumeration value="online journal article" />
          <xs:enumeration value="patent" />
          <xs:enumeration value="submission" />
          <xs:enumeration value="thesis" />
          <xs:enumeration value="unpublished observations" />
        </xs:restriction>
      </xs:simpleType>
    </xs:attribute>
    <xs:attribute name="date" use="optional">
      <xs:simpleType>
        <xs:union memberTypes="xs:date xs:gYearMonth xs:gYear" />
      </xs:simpleType>
    </xs:attribute>
    <xs:attribute name="name" type="xs:string" use="optional">
      <xs:annotation>
        <xs:documentation>Describes the name of an (online) journal or book.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
    <xs:attribute name="volume" type="xs:string"
      use="optional">
      <xs:annotation>
        <xs:documentation>Describes the volume of a journal or book.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
    <xs:attribute name="first" type="xs:string"
      use="optional">
      <xs:annotation>
        <xs:documentation>Describes the first page of an article.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
    <xs:attribute name="last" type="xs:string" use="optional">
      <xs:annotation>
        <xs:documentation>Describes the last page of an article.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
    <xs:attribute name="publisher" type="xs:string"
      use="optional">
      <xs:annotation>
        <xs:documentation>Describes the publisher of a book.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
    <xs:attribute name="city" type="xs:string" use="optional">
      <xs:annotation>
        <xs:documentation>Describes the city where a book was published.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
    <xs:attribute name="db" type="xs:string" use="optional">
      <xs:annotation>
        <xs:documentation>Describes the database name of submissions.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
    <xs:attribute name="number" type="xs:string"
      use="optional">
      <xs:annotation>
        <xs:documentation>Describes a patent number.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
    <xs:attribute name="institute" type="xs:string"
      use="optional">
      <xs:annotation>
        <xs:documentation>Describes the institute where a thesis was made.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
    <xs:attribute name="country" type="xs:string"
      use="optional">
      <xs:annotation>
        <xs:documentation>Describes the country where a thesis was made.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
  </xs:complexType>
  <xs:complexType name="consortiumType">
    <xs:annotation>
      <xs:documentation>Describes the authors of a citation when these are
        represented by a consortium.
        Equivalent to the flat file RG-line.</xs:documentation>
    </xs:annotation>
    <xs:attribute name="name" type="xs:string" use="required" />
  </xs:complexType>
  <xs:complexType name="personType">
    <xs:attribute name="name" type="xs:string" use="required" />
  </xs:complexType>
  <xs:complexType name="nameListType">
    <xs:choice maxOccurs="unbounded">
      <xs:element name="consortium" type="consortiumType" />
      <xs:element name="person" type="personType" />
    </xs:choice>
  </xs:complexType>
  <!-- Citation definition ends -->

  <!-- Citation summary definition begins -->
  <xs:group name="sptrCitationGroup">
    <xs:annotation>
      <xs:documentation>Groups a citation's scope and source descriptions.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="scope" type="xs:string"
        maxOccurs="unbounded">
        <xs:annotation>
          <xs:documentation>Describes the scope of a citation.
            Equivalent to
            the flat file RP-line.</xs:documentation>
        </xs:annotation>
      </xs:element>
      <xs:element name="source" type="sourceDataType"
        minOccurs="0" />
    </xs:sequence>
  </xs:group>
  <xs:complexType name="sourceDataType">
    <xs:annotation>
      <xs:documentation>Describes the source of the sequence according to
        the citation.
        Equivalent to the flat file RC-line.</xs:documentation>
    </xs:annotation>
    <xs:choice maxOccurs="unbounded">
      <xs:element name="strain">
        <xs:complexType>
          <xs:simpleContent>
            <xs:extension base="xs:string">
              <xs:attribute name="evidence" type="intListType"
                use="optional" />
            </xs:extension>
          </xs:simpleContent>
        </xs:complexType>
      </xs:element>
      <xs:element name="plasmid">
        <xs:complexType>
          <xs:simpleContent>
            <xs:extension base="xs:string">
              <xs:attribute name="evidence" type="intListType"
                use="optional" />
            </xs:extension>
          </xs:simpleContent>
        </xs:complexType>
      </xs:element>
      <xs:element name="transposon">
        <xs:complexType>
          <xs:simpleContent>
            <xs:extension base="xs:string">
              <xs:attribute name="evidence" type="intListType"
                use="optional" />
            </xs:extension>
          </xs:simpleContent>
        </xs:complexType>
      </xs:element>
      <xs:element name="tissue">
        <xs:complexType>
          <xs:simpleContent>
            <xs:extension base="xs:string">
              <xs:attribute name="evidence" type="intListType"
                use="optional" />
            </xs:extension>
          </xs:simpleContent>
        </xs:complexType>
      </xs:element>
    </xs:choice>
  </xs:complexType>
  <!-- Citation summary definition ends -->

  <!-- Comment definition begins -->
  <xs:complexType name="commentType">
    <xs:annotation>
      <xs:documentation>Describes different types of general annotations.
        Equivalent to the flat file CC-line.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="molecule" type="moleculeType"
        minOccurs="0" />
      <xs:choice minOccurs="0">
        <xs:group ref="bpcCommentGroup" />

        <xs:sequence>
          <xs:annotation>
            <xs:documentation>Used in 'catalytic activity' annotations.</xs:documentation>
          </xs:annotation>
          <xs:element name="reaction" type="reactionType" />
          <xs:element name="physiologicalReaction"
            type="physiologicalReactionType" minOccurs="0" maxOccurs="2" />
        </xs:sequence>

        <xs:sequence>
          <xs:annotation>
            <xs:documentation>Used in 'cofactor' annotations.</xs:documentation>
          </xs:annotation>
          <xs:element name="cofactor" type="cofactorType"
            maxOccurs="unbounded" />
        </xs:sequence>

        <xs:sequence>
          <xs:annotation>
            <xs:documentation>Used in 'subcellular location' annotations.</xs:documentation>
          </xs:annotation>
          <xs:element name="subcellularLocation"
            type="subcellularLocationType" maxOccurs="unbounded" />
        </xs:sequence>

        <xs:element name="conflict">
          <xs:annotation>
            <xs:documentation>Used in 'sequence caution' annotations.</xs:documentation>
          </xs:annotation>
          <xs:complexType>
            <xs:sequence>
              <xs:element name="sequence" minOccurs="0">
                <xs:complexType>
                  <xs:attribute name="resource" use="required">
                    <xs:simpleType>
                      <xs:restriction base="xs:string">
                        <xs:enumeration value="EMBL-CDS" />
                        <xs:enumeration value="EMBL" />
                      </xs:restriction>
                    </xs:simpleType>
                  </xs:attribute>
                  <xs:attribute name="id" type="xs:string"
                    use="required" />
                  <xs:attribute name="version" type="xs:int"
                    use="optional" />
                </xs:complexType>
              </xs:element>
            </xs:sequence>
            <xs:attribute name="type" use="required">
              <xs:simpleType>
                <xs:restriction base="xs:string">
                  <xs:enumeration value="frameshift" />
                  <xs:enumeration value="erroneous initiation" />
                  <xs:enumeration value="erroneous termination" />
                  <xs:enumeration
                    value="erroneous gene model prediction" />
                  <xs:enumeration value="erroneous translation" />
                  <xs:enumeration
                    value="miscellaneous discrepancy" />
                </xs:restriction>
              </xs:simpleType>
            </xs:attribute>
            <xs:attribute name="ref" type="xs:string"
              use="optional">
              <xs:annotation>
                <xs:documentation>Refers to the 'key' attribute of a 'reference'
                  element.</xs:documentation>
              </xs:annotation>
            </xs:attribute>
          </xs:complexType>
        </xs:element>

        <xs:sequence>
          <xs:element name="link" minOccurs="0"
            maxOccurs="unbounded">
            <xs:annotation>
              <xs:documentation>Used in 'online information' annotations.</xs:documentation>
            </xs:annotation>
            <xs:complexType>
              <xs:attribute name="uri" type="xs:anyURI"
                use="required" />
            </xs:complexType>
          </xs:element>
        </xs:sequence>

        <xs:sequence>
          <xs:annotation>
            <xs:documentation>Used in 'alternative products' annotations.</xs:documentation>
          </xs:annotation>
          <xs:element name="event" type="eventType" maxOccurs="4" />
          <xs:element name="isoform" type="isoformType"
            minOccurs="0" maxOccurs="unbounded" />
        </xs:sequence>

        <xs:sequence>
          <xs:annotation>
            <xs:documentation>Used in 'interaction' annotations.</xs:documentation>
          </xs:annotation>
          <xs:element name="interactant" type="interactantType"
            minOccurs="2" maxOccurs="2" />
          <xs:element name="organismsDiffer" type="xs:boolean"
            default="false" />
          <xs:element name="experiments" type="xs:int" />
        </xs:sequence>

        <xs:element name="disease">
          <xs:annotation>
            <xs:documentation>Used in 'disease' annotations.</xs:documentation>
          </xs:annotation>
          <xs:complexType>
            <xs:sequence>
              <xs:element name="name" type="xs:string" />
              <xs:element name="acronym" type="xs:string" />
              <xs:element name="description" type="xs:string" />
              <xs:element name="dbReference" type="dbReferenceType" />
            </xs:sequence>
            <xs:attribute name="id" type="xs:string"
              use="required" />
          </xs:complexType>
        </xs:element>

      </xs:choice>

      <xs:element name="location" type="locationType"
        minOccurs="0" maxOccurs="unbounded">
        <xs:annotation>
          <xs:documentation>Used in 'mass spectrometry' and 'sequence
            caution' annotations.</xs:documentation>
        </xs:annotation>
      </xs:element>

      <xs:element name="text" type="evidencedStringType"
        minOccurs="0" maxOccurs="unbounded" />

    </xs:sequence>

    <xs:attribute name="type" use="required">
      <xs:annotation>
        <xs:documentation>Describes the type of a general annotation.
          Equivalent to the flat file CC comment topics (except for
          "DATABASE" which is translated to "online information").</xs:documentation>
      </xs:annotation>
      <xs:simpleType>
        <xs:restriction base="xs:string">
          <xs:enumeration value="allergen" />
          <xs:enumeration value="alternative products" />
          <xs:enumeration value="biotechnology" />
          <xs:enumeration
            value="biophysicochemical properties" />
          <xs:enumeration value="catalytic activity" />
          <xs:enumeration value="caution" />
          <xs:enumeration value="cofactor" />
          <xs:enumeration value="developmental stage" />
          <xs:enumeration value="disease" />
          <xs:enumeration value="domain" />
          <xs:enumeration value="disruption phenotype" />
          <xs:enumeration value="activity regulation" />
          <xs:enumeration value="function" />
          <xs:enumeration value="induction" />
          <xs:enumeration value="miscellaneous" />
          <xs:enumeration value="pathway" />
          <xs:enumeration value="pharmaceutical" />
          <xs:enumeration value="polymorphism" />
          <xs:enumeration value="PTM" />
          <xs:enumeration value="RNA editing" />
          <xs:enumeration value="similarity" />
          <xs:enumeration value="subcellular location" />
          <xs:enumeration value="sequence caution" />
          <xs:enumeration value="subunit" />
          <xs:enumeration value="tissue specificity" />
          <xs:enumeration value="toxic dose" />
          <xs:enumeration value="online information" />
          <xs:enumeration value="mass spectrometry" />
          <xs:enumeration value="interaction" />
        </xs:restriction>
      </xs:simpleType>
    </xs:attribute>

    <xs:attribute name="locationType" type="xs:string"
      use="optional">
      <xs:annotation>
        <xs:documentation>Describes the type of sequence location in 'RNA
          editing' annotations. Common values are "Not_applicable" and
          "Undetermined".</xs:documentation>
      </xs:annotation>
    </xs:attribute>

    <xs:attribute name="name" type="xs:string" use="optional">
      <xs:annotation>
        <xs:documentation>Describes an optional name for an 'online
          information'.</xs:documentation>
      </xs:annotation>
    </xs:attribute>

    <xs:attribute name="mass" type="xs:float" use="optional">
      <xs:annotation>
        <xs:documentation>Describes the molecular mass in 'mass
          spectrometry' annotations.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
    <xs:attribute name="error" type="xs:string"
      use="optional">
      <xs:annotation>
        <xs:documentation>Describes the error of the mass measurement in
          'mass spectrometry' annotations.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
    <xs:attribute name="method" type="xs:string"
      use="optional">
      <xs:annotation>
        <xs:documentation>Describes the experimental method in 'mass
          spectrometry' annotations.</xs:documentation>
      </xs:annotation>
    </xs:attribute>

    <xs:attribute name="evidence" type="intListType"
      use="optional" />
  </xs:complexType>

  <xs:group name="bpcCommentGroup">
    <xs:annotation>
      <xs:documentation>Describes different types of biophysicochemical
        properties.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="absorption" minOccurs="0">
        <xs:complexType>
          <xs:sequence>
            <xs:element name="max" type="evidencedStringType"
              minOccurs="0" />
            <xs:element name="text" type="evidencedStringType"
              minOccurs="0" maxOccurs="unbounded" />
          </xs:sequence>
        </xs:complexType>
      </xs:element>
      <xs:element name="kinetics" minOccurs="0">
        <xs:complexType>
          <xs:sequence>
            <xs:element name="KM" type="evidencedStringType"
              minOccurs="0" maxOccurs="unbounded" />
            <xs:element name="Vmax" type="evidencedStringType"
              minOccurs="0" maxOccurs="unbounded" />
            <xs:element name="text" type="evidencedStringType"
              minOccurs="0" maxOccurs="unbounded" />
          </xs:sequence>
        </xs:complexType>
      </xs:element>
      <xs:element name="phDependence" minOccurs="0">
        <xs:complexType>
          <xs:sequence>
            <xs:element name="text" type="evidencedStringType"
              maxOccurs="unbounded" />
          </xs:sequence>
        </xs:complexType>
      </xs:element>
      <xs:element name="redoxPotential" minOccurs="0">
        <xs:complexType>
          <xs:sequence>
            <xs:element name="text" type="evidencedStringType"
              maxOccurs="unbounded" />
          </xs:sequence>
        </xs:complexType>
      </xs:element>
      <xs:element name="temperatureDependence" minOccurs="0">
        <xs:complexType>
          <xs:sequence>
            <xs:element name="text" type="evidencedStringType"
              maxOccurs="unbounded" />
          </xs:sequence>
        </xs:complexType>
      </xs:element>
    </xs:sequence>
  </xs:group>

  <xs:complexType name="reactionType">
    <xs:annotation>
      <xs:documentation>Describes a chemical reaction.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="text" type="xs:string" />
      <xs:element name="dbReference" type="dbReferenceType"
        minOccurs="1" maxOccurs="unbounded" />
    </xs:sequence>
    <xs:attribute name="evidence" type="intListType"
      use="optional" />
  </xs:complexType>

  <xs:complexType name="physiologicalReactionType">
    <xs:annotation>
      <xs:documentation>Describes a physiological reaction.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="dbReference" type="dbReferenceType" />
    </xs:sequence>
    <xs:attribute name="direction" use="required">
      <xs:simpleType>
        <xs:restriction base="xs:string">
          <xs:enumeration value="left-to-right" />
          <xs:enumeration value="right-to-left" />
        </xs:restriction>
      </xs:simpleType>
    </xs:attribute>
    <xs:attribute name="evidence" type="intListType"
      use="optional" />
  </xs:complexType>

  <xs:complexType name="cofactorType">
    <xs:annotation>
      <xs:documentation>Describes a cofactor.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="name" type="xs:string" />
      <xs:element name="dbReference" type="dbReferenceType" />
    </xs:sequence>
    <xs:attribute name="evidence" type="intListType"
      use="optional" />
  </xs:complexType>

  <xs:complexType name="subcellularLocationType">
    <xs:annotation>
      <xs:documentation>Describes the subcellular location and optionally
        the topology and orientation of a molecule.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="location" type="evidencedStringType"
        maxOccurs="unbounded" />
      <xs:element name="topology" type="evidencedStringType"
        minOccurs="0" maxOccurs="unbounded" />
      <xs:element name="orientation" type="evidencedStringType"
        minOccurs="0" maxOccurs="unbounded" />
    </xs:sequence>
  </xs:complexType>

  <xs:complexType name="eventType">
    <xs:annotation>
      <xs:documentation>Describes the type of events that cause alternative
        products.</xs:documentation>
    </xs:annotation>
    <xs:attribute name="type" use="required">
      <xs:simpleType>
        <xs:restriction base="xs:string">
          <xs:enumeration value="alternative splicing" />
          <xs:enumeration value="alternative initiation" />
          <xs:enumeration value="alternative promoter" />
          <xs:enumeration value="ribosomal frameshifting" />
        </xs:restriction>
      </xs:simpleType>
    </xs:attribute>
  </xs:complexType>

  <xs:complexType name="isoformType">
    <xs:annotation>
      <xs:documentation>Describes isoforms in 'alternative products'
        annotations.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="id" type="xs:string"
        maxOccurs="unbounded" />
      <xs:element name="name" maxOccurs="unbounded">
        <xs:complexType>
          <xs:simpleContent>
            <xs:extension base="xs:string">
              <xs:attribute name="evidence" type="intListType"
                use="optional" />
            </xs:extension>
          </xs:simpleContent>
        </xs:complexType>
      </xs:element>
      <xs:element name="sequence">
        <xs:complexType>
          <xs:attribute name="type" use="required">
            <xs:simpleType>
              <xs:restriction base="xs:string">
                <xs:enumeration value="not described" />
                <xs:enumeration value="described" />
                <xs:enumeration value="displayed" />
                <xs:enumeration value="external" />
              </xs:restriction>
            </xs:simpleType>
          </xs:attribute>
          <xs:attribute name="ref" type="xs:string"
            use="optional" />
        </xs:complexType>
      </xs:element>
      <xs:element name="text" type="evidencedStringType"
        minOccurs="0" maxOccurs="unbounded" />
    </xs:sequence>
  </xs:complexType>

  <xs:group name="interactantGroup">
    <xs:sequence>
      <xs:element name="id" type="xs:string" />
      <xs:element name="label" type="xs:string" minOccurs="0" />
      <xs:element name="dbReference" type="dbReferenceType"
        minOccurs="0" />
    </xs:sequence>
  </xs:group>
  <xs:complexType name="interactantType">
    <xs:group ref="interactantGroup" minOccurs="0" />
    <xs:attribute name="intactId" type="xs:string"
      use="required" />
  </xs:complexType>
  <!-- Comment definition ends -->

  <!-- Database cross-reference definition begins -->
  <xs:complexType name="dbReferenceType">
    <xs:annotation>
      <xs:documentation>Describes a database cross-reference.
        Equivalent to
        the flat file DR-line.
      </xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="molecule" type="moleculeType"
        minOccurs="0" />
      <xs:element name="property" type="propertyType"
        minOccurs="0" maxOccurs="unbounded" />
    </xs:sequence>
    <xs:attribute name="type" type="xs:string" use="required">
      <xs:annotation>
        <xs:documentation>Describes the name of the database.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
    <xs:attribute name="id" type="xs:string" use="required">
      <xs:annotation>
        <xs:documentation>Describes a unique database identifier.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
    <xs:attribute name="evidence" type="intListType"
      use="optional" />
    <!-- xs:attribute name="key" type="xs:string" use="optional"/ -->
  </xs:complexType>

  <xs:complexType name="propertyType">
    <xs:attribute name="type" type="xs:string" use="required" />
    <xs:attribute name="value" type="xs:string"
      use="required" />
  </xs:complexType>
  <!-- Database cross-reference definition ends -->

  <!-- Protein existence definition begins -->
  <xs:complexType name="proteinExistenceType">
    <xs:annotation>
      <xs:documentation>Describes the evidence for the protein's existence.
        Equivalent to the flat file PE-line.</xs:documentation>
    </xs:annotation>
    <xs:attribute name="type" use="required">
      <xs:simpleType>
        <xs:restriction base="xs:string">
          <xs:enumeration value="evidence at protein level" />
          <xs:enumeration value="evidence at transcript level" />
          <xs:enumeration value="inferred from homology" />
          <xs:enumeration value="predicted" />
          <xs:enumeration value="uncertain" />
        </xs:restriction>
      </xs:simpleType>
    </xs:attribute>
  </xs:complexType>
  <!-- Protein existence definition ends -->

  <!-- Keyword definition begins -->
  <xs:complexType name="keywordType">
    <xs:simpleContent>
      <xs:extension base="xs:string">
        <xs:attribute name="evidence" type="intListType"
          use="optional" />
        <xs:attribute name="id" type="xs:string" use="required" />
      </xs:extension>
    </xs:simpleContent>
  </xs:complexType>
  <!-- Keyword definition ends -->

  <!-- Feature definition begins -->
  <xs:complexType name="featureType">
    <xs:annotation>
      <xs:documentation>Describes different types of sequence annotations.
        Equivalent to the flat file FT-line.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="original" type="xs:string" minOccurs="0">
        <xs:annotation>
          <xs:documentation>Describes the original sequence in annotations
            that describe natural or artifical sequence variations.</xs:documentation>
        </xs:annotation>
      </xs:element>
      <xs:element name="variation" type="xs:string"
        minOccurs="0" maxOccurs="unbounded">
        <xs:annotation>
          <xs:documentation>Describes the variant sequence in annotations
            that describe natural or artifical sequence variations.</xs:documentation>
        </xs:annotation>
      </xs:element>
      <xs:element name="location" type="locationType">
        <xs:annotation>
          <xs:documentation>Describes the sequence coordinates of the
            annotation.</xs:documentation>
        </xs:annotation>
      </xs:element>
      <xs:element name="ligand" type="ligandType" minOccurs="0">
        <xs:annotation>
          <xs:documentation>Describes the chemical entity that is bound in
            annotations that describe binding sites.</xs:documentation>
        </xs:annotation>
      </xs:element>
      <xs:element name="ligandPart" type="ligandPartType"
        minOccurs="0">
        <xs:annotation>
          <xs:documentation>Describes the specific part of a molecule that is
            bound in annotations that describe binding sites.</xs:documentation>
        </xs:annotation>
      </xs:element>
    </xs:sequence>
    <xs:attribute name="type" use="required">
      <xs:annotation>
        <xs:documentation>Describes the type of a sequence annotation.
          Equivalent to the flat file FT feature keys, but using full terms
          instead of acronyms.</xs:documentation>
      </xs:annotation>
      <xs:simpleType>
        <xs:restriction base="xs:string">
          <xs:enumeration value="active site" />
          <xs:enumeration value="binding site" />
          <xs:enumeration value="calcium-binding region" />
          <xs:enumeration value="chain" />
          <xs:enumeration value="coiled-coil region" />
          <xs:enumeration
            value="compositionally biased region" />
          <xs:enumeration value="cross-link" />
          <xs:enumeration value="disulfide bond" />
          <xs:enumeration value="DNA-binding region" />
          <xs:enumeration value="domain" />
          <xs:enumeration value="glycosylation site" />
          <xs:enumeration value="helix" />
          <xs:enumeration value="initiator methionine" />
          <xs:enumeration value="lipid moiety-binding region" />
          <xs:enumeration value="metal ion-binding site" />
          <xs:enumeration value="modified residue" />
          <xs:enumeration value="mutagenesis site" />
          <xs:enumeration value="non-consecutive residues" />
          <xs:enumeration value="non-terminal residue" />
          <xs:enumeration
            value="nucleotide phosphate-binding region" />
          <xs:enumeration value="peptide" />
          <xs:enumeration value="propeptide" />
          <xs:enumeration value="region of interest" />
          <xs:enumeration value="repeat" />
          <xs:enumeration value="non-standard amino acid" />
          <xs:enumeration value="sequence conflict" />
          <xs:enumeration value="sequence variant" />
          <xs:enumeration value="short sequence motif" />
          <xs:enumeration value="signal peptide" />
          <xs:enumeration value="site" />
          <xs:enumeration value="splice variant" />
          <xs:enumeration value="strand" />
          <xs:enumeration value="topological domain" />
          <xs:enumeration value="transit peptide" />
          <xs:enumeration value="transmembrane region" />
          <xs:enumeration value="turn" />
          <xs:enumeration value="unsure residue" />
          <xs:enumeration value="zinc finger region" />
          <xs:enumeration value="intramembrane region" />
        </xs:restriction>
      </xs:simpleType>
    </xs:attribute>
    <xs:attribute name="id" type="xs:string" use="optional" />
    <xs:attribute name="description" type="xs:string"
      use="optional" />
    <xs:attribute name="evidence" type="intListType"
      use="optional" />
    <xs:attribute name="ref" type="xs:string" use="optional" />
  </xs:complexType>

  <xs:complexType name="locationType">
    <xs:annotation>
      <xs:documentation>Describes a sequence location as either a range
        with a begin and end or as a position. The 'sequence' attribute is
        only used when the location is not on the canonical sequence
        displayed in the current entry.</xs:documentation>
    </xs:annotation>
    <xs:choice>
      <xs:sequence>
        <xs:element name="begin" type="positionType" />
        <xs:element name="end" type="positionType" />
      </xs:sequence>
      <xs:element name="position" type="positionType" />
    </xs:choice>
    <xs:attribute name="sequence" type="xs:string"
      use="optional" />
  </xs:complexType>

  <xs:complexType name="positionType">
    <xs:attribute name="position" type="xs:unsignedLong"
      use="optional" />
    <xs:attribute name="status" use="optional"
      default="certain">
      <xs:simpleType>
        <xs:restriction base="xs:string">
          <xs:enumeration value="certain" />
          <xs:enumeration value="uncertain" />
          <xs:enumeration value="less than" />
          <xs:enumeration value="greater than" />
          <xs:enumeration value="unknown" />
        </xs:restriction>
      </xs:simpleType>
    </xs:attribute>
    <xs:attribute name="evidence" type="intListType"
      use="optional" />
  </xs:complexType>

  <xs:complexType name="ligandType">
    <xs:annotation>
      <xs:documentation>Describes a ligand.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="name" type="xs:string" />
      <xs:element name="dbReference" type="dbReferenceType"
        minOccurs="0" />
      <xs:element name="label" type="xs:string" minOccurs="0" />
      <xs:element name="note" type="xs:string" minOccurs="0" />
    </xs:sequence>
  </xs:complexType>

  <xs:complexType name="ligandPartType">
    <xs:annotation>
      <xs:documentation>Describes a ligand part.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="name" type="xs:string" />
      <xs:element name="dbReference" type="dbReferenceType"
        minOccurs="0" />
      <xs:element name="label" type="xs:string" minOccurs="0" />
      <xs:element name="note" type="xs:string" minOccurs="0" />
    </xs:sequence>
  </xs:complexType>
  <!-- Feature definition ends -->

  <!-- Sequence definition begins -->
  <xs:complexType name="sequenceType">
    <xs:simpleContent>
      <xs:extension base="xs:string">
        <xs:attribute name="length" type="xs:int"
          use="required" />
        <xs:attribute name="mass" type="xs:int" use="required" />
        <xs:attribute name="checksum" type="xs:string"
          use="required" />
        <xs:attribute name="modified" type="xs:date"
          use="required" />
        <xs:attribute name="version" type="xs:int"
          use="required" />
        <xs:attribute name="precursor" type="xs:boolean"
          use="optional" />
        <xs:attribute name="fragment" use="optional">
          <xs:simpleType>
            <xs:restriction base="xs:string">
              <xs:enumeration value="single" />
              <xs:enumeration value="multiple" />
            </xs:restriction>
          </xs:simpleType>
        </xs:attribute>
      </xs:extension>
    </xs:simpleContent>
  </xs:complexType>
  <!-- Sequence definition ends -->

  <!-- Molecule definition begins -->
  <xs:complexType name="moleculeType">
    <xs:annotation>
      <xs:documentation>Describes a molecule by name or unique identifier.</xs:documentation>
    </xs:annotation>
    <xs:simpleContent>
      <xs:extension base="xs:string">
        <xs:attribute name="id" type="xs:string" use="optional" />
      </xs:extension>
    </xs:simpleContent>
  </xs:complexType>
  <!-- Molecule definition ends -->

  <!-- Evidence definition begins -->
  <xs:complexType name="evidenceType">
    <xs:annotation>
      <xs:documentation>Describes the evidence for an annotation.
        No flat
        file equivalent.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="source" type="sourceType" minOccurs="0" />
      <xs:element name="importedFrom" type="importedFromType"
        minOccurs="0" />
    </xs:sequence>
    <xs:attribute name="type" type="xs:string" use="required">
      <xs:annotation>
        <xs:documentation>Describes the type of an evidence using the
          Evidence Code Ontology
          (http://www.obofoundry.org/cgi-bin/detail.cgi?id=evidence_code).</xs:documentation>
      </xs:annotation>
    </xs:attribute>
    <xs:attribute name="key" type="xs:integer" use="required">
      <xs:annotation>
        <xs:documentation>A unique key to link annotations (via 'evidence'
          attributes) to evidences.</xs:documentation>
      </xs:annotation>
    </xs:attribute>
  </xs:complexType>
  <xs:complexType name="sourceType">
    <xs:annotation>
      <xs:documentation>Describes the source of the data using a database
        cross-reference (or a 'ref' attribute when the source cannot be
        found in a public data source, such as PubMed, and is cited only
        within the UniProtKB entry).</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="dbReference" type="dbReferenceType"
        minOccurs="0" />
    </xs:sequence>
    <xs:attribute name="ref" type="xs:integer" use="optional" />
  </xs:complexType>
  <xs:complexType name="importedFromType">
    <xs:annotation>
      <xs:documentation>Describes the source of the evidence, when it is
        not assigned by UniProt, but imported from an external database.</xs:documentation>
    </xs:annotation>
    <xs:sequence>
      <xs:element name="dbReference" type="dbReferenceType" />
    </xs:sequence>
  </xs:complexType>
  <!-- Evidence definition ends -->

  <xs:complexType name="evidencedStringType">
    <xs:simpleContent>
      <xs:extension base="xs:string">
        <xs:attribute name="evidence" type="intListType"
          use="optional" />
      </xs:extension>
    </xs:simpleContent>
  </xs:complexType>

  <xs:simpleType name="intListType">
    <xs:list itemType="xs:int" />
  </xs:simpleType>
</xs:schema>