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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,40 +1,133 @@ | ||
| <?xml version="1.0" encoding="UTF-8"?> | ||
| <Pathway xmlns="http://pathvisio.org/GPML/2013a" Name="draw-cofactor-reaction-start" Organism="Homo sapiens"> | ||
| <Graphics BoardWidth="318.94752955639717" BoardHeight="327.4925970388157" /> | ||
| <DataNode TextLabel="D-threo-Isocitrate" GraphId="b96da" Type="Metabolite"> | ||
| <Comment>The ChEBI ID with the correct charge is: 15562</Comment> | ||
| <Attribute Key="org.pathvisio.model.BackpageHead" Value="Isocitrate" /> | ||
| <Graphics CenterX="182.66528053227594" CenterY="105.1870748299321" Width="88.0" Height="20.0" ZOrder="32768" FontSize="10" Valign="Middle" Color="4646dc" /> | ||
| <Xref Database="HMDB" ID="HMDB0000193" /> | ||
| <Pathway xmlns="http://pathvisio.org/GPML/2013a" Name="draw-cofactor-reaction-solution" Version="20180309" Organism="Homo sapiens"> | ||
| <Comment Source="WikiPathways-description">This pathway visualises the conversion of methionine to inorganic sulphates (involving the formation of homocysteine, a toxic intermediate also related to MTHFR deficiency [https://www.wikipathways.org/index.php/Pathway:WP4288]). Methionine, an essential amino acid, is taken in from diet and can be created from breaking down proteins. | ||
|
|
||
| This pathway was inspired by Chapter 3 of the book of Blau (ISBN 3642403360 (978-3642403361)).</Comment> | ||
| <Graphics BoardWidth="762.625" BoardHeight="329.4904031250181" /> | ||
| <DataNode TextLabel="Methionine" GraphId="af11a" Type="Metabolite"> | ||
| <Graphics CenterX="224.70096145079327" CenterY="93.83299571761097" Width="109.01416331170299" Height="25.0" ZOrder="32980" FontSize="12" Valign="Middle" Color="0000ff" /> | ||
| <Xref Database="ChEBI" ID="CHEBI:16643" /> | ||
| </DataNode> | ||
| <DataNode TextLabel="2-oxoglutarate" GraphId="da75d" Type="Metabolite"> | ||
| <Graphics CenterX="182.66528053227594" CenterY="287.4925970388157" Width="84.9238578680197" Height="20.0" ZOrder="32768" FontSize="10" Valign="Middle" Color="4646dc" /> | ||
| <Xref Database="HMDB" ID="HMDB0000208" /> | ||
| <DataNode TextLabel="Homocysteine" GraphId="cbe02" Type="Metabolite"> | ||
| <Graphics CenterX="224.70096145079327" CenterY="286.9904031250181" Width="113.40192290158654" Height="25.0" ZOrder="33017" FontSize="12" Valign="Middle" Color="0000ff" /> | ||
| <Xref Database="ChEBI" ID="CHEBI:17230" /> | ||
| </DataNode> | ||
| <Interaction GraphId="id17b35470"> | ||
| <Graphics ConnectorType="Segmented" ZOrder="12288" LineThickness="1.0"> | ||
| <Point X="182.66528053227594" Y="115.1870748299321" GraphRef="b96da" RelX="0.0" RelY="1.0" /> | ||
| <Point X="182.66528053227594" Y="277.4925970388157" GraphRef="da75d" RelX="0.0" RelY="-1.0" ArrowHead="mim-conversion" /> | ||
| <Interaction GraphId="e26dd"> | ||
| <Graphics ZOrder="33025" LineThickness="1.0"> | ||
| <Point X="224.70096145079327" Y="274.4904031250181" GraphRef="cbe02" RelX="0.0" RelY="-1.0" /> | ||
| <Point X="224.70096145079327" Y="106.33299571761097" GraphRef="af11a" RelX="0.0" RelY="1.0" ArrowHead="mim-conversion" /> | ||
| </Graphics> | ||
| <Xref Database="" ID="" /> | ||
| <Xref Database="Rhea" ID="11173" /> | ||
| </Interaction> | ||
| <InfoBox CenterX="4.5" CenterY="5.333333333333333" /> | ||
| <InfoBox CenterX="0.0" CenterY="0.0" /> | ||
| <Biopax> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">citrate cycle pathway</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0000026</bp:ID> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">hypermethioninemia pathway</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0002471</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">hypermethioninemia pathway</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0001868</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">homocystinuria</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">DOID:9263</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Disease</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">hypermethioninemia</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">DOID:0050544</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Disease</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">hypermethioninemia due to adenosine kinase deficiency</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">DOID:0111038</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Disease</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">cystathioninuria pathway</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0002561</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">hypermethioninemia with deficiency of S-adenosylhomocysteine hydrolase</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">DOID:0111039</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Disease</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">altered metal homeostasis pathway</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0001832</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">classic metabolic pathway</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0000002</bp:ID> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">glycine N-methyltransferase deficiency</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">DOID:0111037</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Disease</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:PublicationXref xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:id="eac"> | ||
| <bp:ID rdf:datatype="http://www.w3.org/2001/XMLSchema#string">16435220</bp:ID> | ||
| <bp:DB rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PubMed</bp:DB> | ||
| <bp:TITLE rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Methionine adenosyltransferase (MAT) I/III deficiency with concurrent hyperhomocysteinaemia: two novel cases.</bp:TITLE> | ||
| <bp:SOURCE rdf:datatype="http://www.w3.org/2001/XMLSchema#string">J Inherit Metab Dis</bp:SOURCE> | ||
| <bp:YEAR rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2005</bp:YEAR> | ||
| <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Linnebank M</bp:AUTHORS> | ||
| <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Lagler F</bp:AUTHORS> | ||
| <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Muntau AC</bp:AUTHORS> | ||
| <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Röschinger W</bp:AUTHORS> | ||
| <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Olgemöller B</bp:AUTHORS> | ||
| <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Fowler B</bp:AUTHORS> | ||
| <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Koch HG</bp:AUTHORS> | ||
| </bp:PublicationXref> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">methionine degradation pathway</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0001302</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">sulfite oxidase deficiency pathway</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0001647</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">glycine N-methyltransferase deficiency pathway</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0002299</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">disease pathway</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0000013</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">TCA cycle</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0000026</bp:ID> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">cystathioninuria</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">DOID:0090142</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Disease</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">homocystinuria pathway</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0001841</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">cysteine and methionine metabolic pathway</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0001078</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| <bp:PublicationXref xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:id="f2b"> | ||
| <bp:ID rdf:datatype="http://www.w3.org/2001/XMLSchema#string">6822523</bp:ID> | ||
| <bp:DB rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PubMed</bp:DB> | ||
| <bp:TITLE rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Cysteinesulfinate metabolism. altered partitioning between transamination and decarboxylation following administration of beta-methyleneaspartate.</bp:TITLE> | ||
| <bp:SOURCE rdf:datatype="http://www.w3.org/2001/XMLSchema#string">J Biol Chem</bp:SOURCE> | ||
| <bp:YEAR rdf:datatype="http://www.w3.org/2001/XMLSchema#string">1983</bp:YEAR> | ||
| <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Griffith OW</bp:AUTHORS> | ||
| </bp:PublicationXref> | ||
| <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#"> | ||
| <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">isolated sulfite oxidase deficiency</bp:TERM> | ||
| <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">DOID:0111270</bp:ID> | ||
| <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Disease</bp:Ontology> | ||
| </bp:openControlledVocabulary> | ||
| </Biopax> | ||
| </Pathway> | ||
|
|
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