1une: Difference between revisions

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-[[Image:1une.gif|left|200px]]<br /><applet load="1une" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1une, resolution 1.5&Aring;" />
-'''CARBOXYLIC ESTER HYDROLASE, 1.5 ANGSTROM ORTHORHOMBIC FORM OF THE BOVINE RECOMBINANT PLA2'''<br />
-==Overview==
+==CARBOXYLIC ESTER HYDROLASE, 1.5 ANGSTROM ORTHORHOMBIC FORM OF THE BOVINE RECOMBINANT PLA2==
-The X-ray structure of recombinant bovine pancreatic phospholipase A2, (PLA2), which specifically catalyzes the cleavage of the sn-2 acylester, bond of phospholipids, has been refined at 1.5 A resolution. The crystal, belongs to the space group P212121 with unit-cell parameters a = 47.12, b, = 64.59 and c = 38.14 A similar to the native enzyme reported previously, by Dijkstra et al. [J. Mol. Biol. (1981), 147, 97-123]. The refinement, converged to an R value of 18.4% (Rfree = 22.8%) for 16 374 reflections, between 10.0 and 1.5 A resolution. The surface-loop residues (60-70) are, ordered in the present orthorhombic recombinant enzyme, but disordered in, the trigonal recombinant enzyme. The active-site residues, His48, Asp99, and the catalytic water superimpose well with the trigonal form. Besides, the catalytic water which is hydrogen bonded to His48, it is often seen, that there is a second water attached to the same N atom of His48 and, simultaneously hydrogen bonded to the O atom of Asp49. It is thought that, the second water facilitates the tautomerism of His48 for enzyme, catalysis. The catalytic water is also hydrogen bonded to the equatorial, water coordinated to the calcium ion. In addition to the equatorial water, there is also an axial calcium water and the additional structural water., These five common water molecules are hydrogen bonded to the additional 16, water molecules in the present orthorhombic structure which may further, enhance the structural integrity of the active site. Besides the protein, and one calcium ion, a total of 134 water molecules were located in the, present high-resolution refinement.
+<StructureSection load='1une' size='340' side='right'caption='[[1une]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1une]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UNE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UNE FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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=1une FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1une OCA], [https://pdbe.org/1une PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1une RCSB], [https://www.ebi.ac.uk/pdbsum/1une PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1une ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/PA21B_BOVIN PA21B_BOVIN] PA2 catalyzes the calcium-dependent hydrolysis of the 2-acyl groups in 3-sn-phosphoglycerides.
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/un/1une_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1une ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The X-ray structure of recombinant bovine pancreatic phospholipase A2 (PLA2), which specifically catalyzes the cleavage of the sn-2 acylester bond of phospholipids, has been refined at 1.5 A resolution. The crystal belongs to the space group P212121 with unit-cell parameters a = 47.12, b = 64.59 and c = 38.14 A similar to the native enzyme reported previously by Dijkstra et al. [J. Mol. Biol. (1981), 147, 97-123]. The refinement converged to an R value of 18.4% (Rfree = 22.8%) for 16 374 reflections between 10.0 and 1.5 A resolution. The surface-loop residues (60-70) are ordered in the present orthorhombic recombinant enzyme, but disordered in the trigonal recombinant enzyme. The active-site residues, His48, Asp99, and the catalytic water superimpose well with the trigonal form. Besides the catalytic water which is hydrogen bonded to His48, it is often seen that there is a second water attached to the same N atom of His48 and simultaneously hydrogen bonded to the O atom of Asp49. It is thought that the second water facilitates the tautomerism of His48 for enzyme catalysis. The catalytic water is also hydrogen bonded to the equatorial water coordinated to the calcium ion. In addition to the equatorial water, there is also an axial calcium water and the additional structural water. These five common water molecules are hydrogen bonded to the additional 16 water molecules in the present orthorhombic structure which may further enhance the structural integrity of the active site. Besides the protein and one calcium ion, a total of 134 water molecules were located in the present high-resolution refinement.
-==About this Structure==
+High-resolution refinement of orthorhombic bovine pancreatic phospholipase A2.,Sekar K, Sundaralingam M Acta Crystallogr D Biol Crystallogr. 1999 Jan;55(Pt 1):46-50. Epub 1999, Jan 1. PMID:10089393<ref>PMID:10089393</ref>
-UNE is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus] with CA as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Phospholipase_A(2) Phospholipase A(2)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.4 3.1.1.4] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1UNE OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-High-resolution refinement of orthorhombic bovine pancreatic phospholipase A2., Sekar K, Sundaralingam M, Acta Crystallogr D Biol Crystallogr. 1999 Jan;55(Pt 1):46-50. Epub 1999, Jan 1. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10089393 10089393]
+</div>
+<div class="pdbe-citations 1une" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Phospholipase A2 3D structures|Phospholipase A2 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Bos taurus]]
-[[Category: Phospholipase A(2)]]
+[[Category: Large Structures]]
-[[Category: Single protein]]
+[[Category: Sundaralingam M]]
-[[Category: Sundaralingam, M.]]
-[[Category: CA]]
-[[Category: carboxylic ester hydrolase]]
-[[Category: enzyme]]
-[[Category: hydrolase]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 04:15:33 2007''