2gdz

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Current revision (08:48, 25 October 2023) (edit) (undo)
 
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<StructureSection load='2gdz' size='340' side='right'caption='[[2gdz]], [[Resolution|resolution]] 1.65&Aring;' scene=''>
<StructureSection load='2gdz' size='340' side='right'caption='[[2gdz]], [[Resolution|resolution]] 1.65&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[2gdz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GDZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GDZ FirstGlance]. <br>
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<table><tr><td colspan='2'>[[2gdz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GDZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GDZ FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.65&#8491;</td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/15-hydroxyprostaglandin_dehydrogenase_(NAD(+)) 15-hydroxyprostaglandin dehydrogenase (NAD(+))], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.141 1.1.1.141] </span></td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2gdz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gdz OCA], [https://pdbe.org/2gdz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2gdz RCSB], [https://www.ebi.ac.uk/pdbsum/2gdz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2gdz ProSAT]</span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2gdz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gdz OCA], [https://pdbe.org/2gdz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2gdz RCSB], [https://www.ebi.ac.uk/pdbsum/2gdz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2gdz ProSAT]</span></td></tr>
</table>
</table>
== Disease ==
== Disease ==
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[[https://www.uniprot.org/uniprot/PGDH_HUMAN PGDH_HUMAN]] Defects in HPGD are the cause of hypertrophic osteoarthropathy, primary, autosomal recessive, type 1 (PHOAR1) [MIM:[https://omim.org/entry/259100 259100]]. A disease characterized by digital clubbing, periostosis, acroosteolysis, painful joint enlargement, and variable features of pachydermia that include thickened facial skin and a thickened scalp. Other developmental anomalies include delayed closure of the cranial sutures and congenital heart disease.<ref>PMID:18500342</ref> Defects in HPGD are the cause of cranioosteoarthropathy (COA) [MIM:[https://omim.org/entry/259100 259100]]. A form of osterarthropathy characterized by swelling of the joints, digital clubbing, hyperhidrosis, delayed closure of the fontanels, periostosis, and variable patent ductus arteriosus. Pachydermia is not a prominent feature.<ref>PMID:18500342</ref> Defects in HPGD are a cause of isolated congenital nail clubbing (ICNC) [MIM:[https://omim.org/entry/119900 119900]]; also called clubbing of digits or hereditary acropachy. ICNC is a rare genodermatosis characterized by enlargement of the nail plate and terminal segments of the fingers and toes, resulting from proliferation of the connective tissues between the nail matrix and the distal phalanx. It is usually symmetrical and bilateral (in some cases unilateral). In nail clubbing usually the distal end of the nail matrix is relatively high compared to the proximal end, while the nail plate is complete but its dimensions and diameter more or less vary in comparison to normal. There may be different fingers and toes involved to varying degrees. Some fingers or toes are spared, but the thumbs are almost always involved.<ref>PMID:18805827</ref>
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[https://www.uniprot.org/uniprot/PGDH_HUMAN PGDH_HUMAN] Defects in HPGD are the cause of hypertrophic osteoarthropathy, primary, autosomal recessive, type 1 (PHOAR1) [MIM:[https://omim.org/entry/259100 259100]. A disease characterized by digital clubbing, periostosis, acroosteolysis, painful joint enlargement, and variable features of pachydermia that include thickened facial skin and a thickened scalp. Other developmental anomalies include delayed closure of the cranial sutures and congenital heart disease.<ref>PMID:18500342</ref> Defects in HPGD are the cause of cranioosteoarthropathy (COA) [MIM:[https://omim.org/entry/259100 259100]. A form of osterarthropathy characterized by swelling of the joints, digital clubbing, hyperhidrosis, delayed closure of the fontanels, periostosis, and variable patent ductus arteriosus. Pachydermia is not a prominent feature.<ref>PMID:18500342</ref> Defects in HPGD are a cause of isolated congenital nail clubbing (ICNC) [MIM:[https://omim.org/entry/119900 119900]; also called clubbing of digits or hereditary acropachy. ICNC is a rare genodermatosis characterized by enlargement of the nail plate and terminal segments of the fingers and toes, resulting from proliferation of the connective tissues between the nail matrix and the distal phalanx. It is usually symmetrical and bilateral (in some cases unilateral). In nail clubbing usually the distal end of the nail matrix is relatively high compared to the proximal end, while the nail plate is complete but its dimensions and diameter more or less vary in comparison to normal. There may be different fingers and toes involved to varying degrees. Some fingers or toes are spared, but the thumbs are almost always involved.<ref>PMID:18805827</ref>
== Function ==
== Function ==
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[[https://www.uniprot.org/uniprot/PGDH_HUMAN PGDH_HUMAN]] Prostaglandin inactivation. Contributes to the regulation of events that are under the control of prostaglandin levels. Catalyzes the NAD-dependent dehydrogenation of lipoxin A4 to form 15-oxo-lipoxin A4. Inhibits in vivo proliferation of colon cancer cells.<ref>PMID:10837478</ref> <ref>PMID:15574495</ref> <ref>PMID:16828555</ref>
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[https://www.uniprot.org/uniprot/PGDH_HUMAN PGDH_HUMAN] Prostaglandin inactivation. Contributes to the regulation of events that are under the control of prostaglandin levels. Catalyzes the NAD-dependent dehydrogenation of lipoxin A4 to form 15-oxo-lipoxin A4. Inhibits in vivo proliferation of colon cancer cells.<ref>PMID:10837478</ref> <ref>PMID:15574495</ref> <ref>PMID:16828555</ref>
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Human]]
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[[Category: Homo sapiens]]
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Arrowsmith, C]]
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[[Category: Arrowsmith C]]
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[[Category: Delft, F Von]]
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[[Category: Edwards A]]
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[[Category: Edwards, A]]
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[[Category: Guo K]]
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[[Category: Guo, K]]
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[[Category: Kavanagh K]]
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[[Category: Kavanagh, K]]
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[[Category: Oppermann U]]
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[[Category: Oppermann, U]]
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[[Category: Pilka ES]]
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[[Category: Pilka, E S]]
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[[Category: Sundstrom M]]
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[[Category: Structural genomic]]
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[[Category: Von Delft F]]
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[[Category: Sundstrom, M]]
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[[Category: Weigelt J]]
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[[Category: Weigelt, J]]
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[[Category: Dehydrogenase]]
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[[Category: Hydroxyprostaglandin]]
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[[Category: Inflammation]]
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[[Category: Oxidoreductase]]
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[[Category: Sgc]]
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[[Category: Short-chain dehydrogenase/reductase]]
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Current revision

Crystal structure of 15-hydroxyprostaglandin dehydrogenase type1, complexed with NAD+

PDB ID 2gdz

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