X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=schemas%2Funiprot.xsd;fp=schemas%2Funiprot.xsd;h=0000000000000000000000000000000000000000;hb=4f77328104498504339216829abf5ea87e2791ec;hp=ce30fe56e14e0368b5d2b86ef876eb8b16efa334;hpb=2b8c0785318a3528e1876e8e2dd48b7d831eae69;p=jalview.git diff --git a/schemas/uniprot.xsd b/schemas/uniprot.xsd deleted file mode 100644 index ce30fe5..0000000 --- a/schemas/uniprot.xsd +++ /dev/null @@ -1,1117 +0,0 @@ - - - - - - - - - - - Describes a collection of UniProtKB entries. - - - - - - - - - - - - - - Describes a UniProtKB entry. - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Describes the names for the protein and parts thereof. - Equivalent to the flat file DE-line. - - - - - - Describes names of "domains". - Equivalent to the flat file DE-line Includes: section. - - - - - - - - Describes names of processed products. - Equivalent to the flat file DE-line Contains: section. - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Describes a gene. - Equivalent to the flat file GN-line. - - - - - - - - Describes different types of gene designations. - Equivalent to the flat file GN-line. - - - - - - - - - - - - - - - - - - - - - - - Describes the source organism. - - - - - Describes the names of the source organism. - Equivalent to the flat file OS-line. - - - - - Describes a cross-reference to the NCBI taxonomy database. - Equivalent to the flat file OX-line. - - - - - Describes the lineage of the source organism. - Equivalent to the flat file OC-line. - - - - - - - - - - - - - Describes different types of source organism names. - - - - - - - - - - - - - - - - - - - - - - - Describes non-nuclear gene locations (organelles and plasmids). - Equivalent to the flat file OG-line. - - - - - - - - - - - - - - - - - - - - - - - - - Indicates whether the name of a plasmid is known or unknown. - - - - - - - - - - - - - - - - - - - - Describes a citation and a summary of its content. - Equivalent to the flat file RN-, RP-, RC-, RX-, RG-, RA-, RT- and RL-lines. - - - - - - - - - - - - - - Describes different types of citations. - Equivalent to the flat file RX-, RG-, RA-, RT- and RL-lines. - - - - - Describes the title of a citation. - Equivalent to the flat file RT-line. - - - - - Describes the editors of a book (only used for books). - Equivalent to part of the flat file RL-line of books. - - - - - Describes the authors of a citation. - Equivalent to the flat file RA-line. - - - - - Describes the location (URL) of an online journal article. - No flat file equivalent. - - - - - Describes cross-references to bibliography databases (MEDLINE, PubMed, AGRICOLA) or other online resources (DOI). - Equivalent to the flat file RX-line. - - - - - - Describes the type of a citation. - - - - - - - - - - - - - - - - - - - - - Describes the name of an (online) journal or book. - - - - - Describes the volume of a journal or book. - - - - - Describes the first page of an article. - - - - - Describes the last page of an article. - - - - - Describes the publisher of a book. - - - - - Describes the city where a book was published. - - - - - Describes the database name of submissions. - - - - - Describes a patent number. - - - - - Describes the institute where a thesis was made. - - - - - Describes the country where a thesis was made. - - - - - - Describes the authors of a citation when these are represented by a consortium. - Equivalent to the flat file RG-line. - - - - - - - - - - - - - - - - - - Groups a citation's scope and source descriptions. - - - - - Describes the scope of a citation. - Equivalent to the flat file RP-line. - - - - - - - - Describes the source of the sequence according to the citation. - Equivalent to the flat file RC-line. - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Describes different types of general annotations. - Equivalent to the flat file CC-line. - - - - - - - - - Used in 'catalytic activity' annotations. - - - - - - - - Used in 'cofactor' annotations. - - - - - - - Used in 'subcellular location' annotations. - - - - - - - Used in 'sequence caution' annotations. - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Refers to the 'key' attribute of a 'reference' element. - - - - - - - - - Used in 'online information' annotations. - - - - - - - - - - Used in 'alternative products' annotations. - - - - - - - - Used in 'interaction' annotations. - - - - - - - - - Used in 'disease' annotations. - - - - - - - - - - - - - - - - - Used in 'mass spectrometry' and 'sequence caution' annotations. - - - - - - - - - - Describes the type of a general annotation. - Equivalent to the flat file CC comment topics (except for "DATABASE" which is translated to "online information"). - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Describes the type of sequence location in 'RNA editing' annotations. Common values are "Not_applicable" and "Undetermined". - - - - - - Describes an optional name for an 'online information'. - - - - - - Describes the molecular mass in 'mass spectrometry' annotations. - - - - - Describes the error of the mass measurement in 'mass spectrometry' annotations. - - - - - Describes the experimental method in 'mass spectrometry' annotations. - - - - - - - - - Describes different types of biophysicochemical properties. - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Describes a chemical reaction. - - - - - - - - - - - Describes a physiological reaction. - - - - - - - - - - - - - - - - - - Describes a cofactor. - - - - - - - - - - - Describes the subcellular location and optionally the topology and orientation of a molecule. - - - - - - - - - - - Describes the type of events that cause alternative products. - - - - - - - - - - - - - - - - Describes isoforms in 'alternative products' annotations. - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Describes a database cross-reference. - Equivalent to the flat file DR-line. - - - - - - - - - Describes the name of the database. - - - - - Describes a unique database identifier. - - - - - - - - - - - - - - - - Describes the evidence for the protein's existence. - Equivalent to the flat file PE-line. - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Describes different types of sequence annotations. - Equivalent to the flat file FT-line. - - - - - Describes the original sequence in annotations that describe natural or artifical sequence variations. - - - - - Describes the variant sequence in annotations that describe natural or artifical sequence variations. - - - - - Describes the sequence coordinates of the annotation. - - - - - - Describes the type of a sequence annotation. - Equivalent to the flat file FT feature keys, but using full terms instead of acronyms. - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - 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. - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Describes a molecule by name or unique identifier. - - - - - - - - - - - - - Describes the evidence for an annotation. - No flat file equivalent. - - - - - - - - Describes the type of an evidence using the Evidence Code Ontology (http://www.obofoundry.org/cgi-bin/detail.cgi?id=evidence_code). - - - - - A unique key to link annotations (via 'evidence' attributes) to evidences. - - - - - - 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). - - - - - - - - - Describes the source of the evidence, when it is not assigned by UniProt, but imported from an external database. - - - - - - - - - - - - - - - - - - - - - - - - - - - - \ No newline at end of file