3qce: Difference between revisions

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 ==Human receptor protein tyrosine phosphatase gamma, domain 1, in complex with 3-[(3,4-dichlorobenzyl)sulfanyl]thiophene-2-carboxylic acid via soaking==
-<StructureSection load='3qce' size='340' side='right' caption='[[3qce]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
+<StructureSection load='3qce' size='340' side='right'caption='[[3qce]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3qce]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QCE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QCE FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3qce]] is a 2 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=3QCE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QCE FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NXY:3-[(3,4-DICHLOROBENZYL)SULFANYL]THIOPHENE-2-CARBOXYLIC+ACID'>NXY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3qcb|3qcb]], [[3qcc|3qcc]], [[3qcd|3qcd]], [[3qcf|3qcf]], [[3qcg|3qcg]], [[3qch|3qch]], [[3qci|3qci]], [[3qcj|3qcj]], [[3qck|3qck]], [[3qcl|3qcl]], [[3qcm|3qcm]], [[3qcn|3qcn]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NXY:3-[(3,4-DICHLOROBENZYL)SULFANYL]THIOPHENE-2-CARBOXYLIC+ACID'>NXY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PTPG, PTPRG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=3qce FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qce OCA], [https://pdbe.org/3qce PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qce RCSB], [https://www.ebi.ac.uk/pdbsum/3qce PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qce ProSAT]</span></td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein-tyrosine-phosphatase Protein-tyrosine-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.48 3.1.3.48] </span></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3qce FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qce OCA], [http://pdbe.org/3qce PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3qce RCSB], [http://www.ebi.ac.uk/pdbsum/3qce PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3qce ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/PTPRG_HUMAN PTPRG_HUMAN]] Possesses tyrosine phosphatase activity.<ref>PMID:19167335</ref>
+[https://www.uniprot.org/uniprot/PTPRG_HUMAN PTPRG_HUMAN] Possesses tyrosine phosphatase activity.<ref>PMID:19167335</ref>
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-Protein tyrosine phosphatases (PTPs) catalyze the dephosphorylation of tyrosine residues, a process that involves a conserved tryptophan-proline-aspartate (WPD) loop in catalysis. In previously determined structures of PTPs, the WPD-loop has been observed in either an "open" conformation or a "closed" conformation. In the current work, X-ray structures of the catalytic domain of receptor-like protein tyrosine phosphatase gamma (RPTPgamma) revealed a ligand-induced "superopen" conformation not previously reported for PTPs. In the superopen conformation, the ligand acts as an apparent competitive inhibitor and binds in a small hydrophobic pocket adjacent to, but distinct from, the active site. In the open and closed WPD-loop conformations of RPTPgamma, the side chain of Trp1026 partially occupies this pocket. In the superopen conformation, Trp1026 is displaced allowing a 3,4-dichlorobenzyl substituent to occupy this site. The bound ligand prevents closure of the WPD-loop over the active site and disrupts the catalytic cycle of the enzyme.
-Small molecule receptor protein tyrosine phosphatase gamma (RPTPgamma) ligands that inhibit phosphatase activity via perturbation of the tryptophan-proline-aspartate (WPD) loop.,Sheriff S, Beno BR, Zhai W, Kostich WA, McDonnell PA, Kish K, Goldfarb V, Gao M, Kiefer SE, Yanchunas J, Huang Y, Shi S, Zhu S, Dzierba C, Bronson J, Macor JE, Appiah KK, Westphal RS, O'Connell J, Gerritz SW J Med Chem. 2011 Oct 13;54(19):6548-62. Epub 2011 Sep 20. PMID:21882820<ref>PMID:21882820</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 3qce" style="background-color:#fffaf0;"></div>
 ==See Also==
-*[[Tyrosine phosphatase|Tyrosine phosphatase]]
+*[[Tyrosine phosphatase 3D structures|Tyrosine phosphatase 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[Category: Homo sapiens]]
-[[Category: Protein-tyrosine-phosphatase]]
+[[Category: Large Structures]]
-[[Category: Sheriff, S]]
+[[Category: Sheriff S]]
-[[Category: Hydrolase-hydrolase inhibitor complex]]
-[[Category: Twisted mixed beta-sheets flanked by {alpha}-helice]]
-[[Category: Tyrosine receptor phosphatase]]