3mk2: Difference between revisions

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-[[Image:3mk2.png|left|200px]]
-<!--
+==Placental alkaline phosphatase complexed with Phe==
-The line below this paragraph, containing "STRUCTURE_3mk2", creates the "Structure Box" on the page.
+<StructureSection load='3mk2' size='340' side='right'caption='[[3mk2]], [[Resolution|resolution]] 1.89&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[3mk2]] 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=3MK2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3MK2 FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.89&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PHE:PHENYLALANINE'>PHE</scene>, <scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-{{STRUCTURE_3mk2|  PDB=3mk2  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3mk2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mk2 OCA], [https://pdbe.org/3mk2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3mk2 RCSB], [https://www.ebi.ac.uk/pdbsum/3mk2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3mk2 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/PPB1_HUMAN PPB1_HUMAN]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+In order to gain deeper insights into the functional sites of human placental alkaline phosphatase, the structures of the enzyme with the putative regulators L-Phe, pNPP and 5'-AMP [Llinas et al. (2005), J. Mol. Biol. 350, 441-451] were re-refined. Significant variations in ligand positioning and identity were found compared with the previous report. The multiple corrections to the model improved the phases and the electron-density maps, allowing the modeling of omitted side chains and multiple disordered residues. These improvements led to a change in the position of L-Phe at the peripheral binding site, which appeared to be reversed. The structure with pNPP contained only p-nitrophenol in three distinct sites, while the structure with 5'-AMP contained the p-nitrophenyl group in two of the sites instead of 5'-AMP. Comparison of the re-refined models shows a consistent pattern of interactions at the peripheral site.
-===Placental alkaline phosphatase complexed with Phe===
+Refined structures of placental alkaline phosphatase show a consistent pattern of interactions at the peripheral site.,Stec B, Cheltsov A, Millan JL Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010 Aug 1;66(Pt, 8):866-70. Epub 2010 Jul 27. PMID:20693656<ref>PMID:20693656</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3mk2" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_15946677}}, adds the Publication Abstract to the page
+*[[Alkaline phosphatase 3D structures|Alkaline phosphatase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 15946677 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_15946677}}
+__TOC__
+</StructureSection>
-==About this Structure==
-[[3mk2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MK2 OCA].
-==Reference==
-<ref group="xtra">PMID:015946677</ref><ref group="xtra">PMID:020693656</ref><references group="xtra"/>
-[[Category: Alkaline phosphatase]]
 [[Category: Homo sapiens]]
-[[Category: Cheltsov, A.]]
+[[Category: Large Structures]]
-[[Category: Millan, J L.]]
+[[Category: Cheltsov A]]
-[[Category: Stec, B.]]
+[[Category: Millan JL]]
-[[Category: Hydrolase]]
+[[Category: Stec B]]
-[[Category: Phe binding]]