1s46: Difference between revisions

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-{{Seed}}
-[[Image:1s46.png|left|200px]]
-<!--
+==Covalent intermediate of the E328Q amylosucrase mutant==
-The line below this paragraph, containing "STRUCTURE_1s46", creates the "Structure Box" on the page.
+<StructureSection load='1s46' size='340' side='right'caption='[[1s46]], [[Resolution|resolution]] 2.20&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'>[[1s46]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Neisseria_polysaccharea Neisseria polysaccharea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S46 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S46 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]] 2.2&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene></td></tr>
-{{STRUCTURE_1s46|  PDB=1s46  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1s46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s46 OCA], [https://pdbe.org/1s46 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s46 RCSB], [https://www.ebi.ac.uk/pdbsum/1s46 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s46 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/AMYS_NEIPO AMYS_NEIPO] Catalyzes the synthesis of alpha-glucan from sucrose. Catalyzes, in addition, sucrose hydrolysis, maltose and maltotriose synthesis by successive transfers of the glucosyl moiety of sucrose onto the released glucose, and finally turanose and trehalulose synthesis, these two sucrose isomers being obtained by glucosyl transfer onto fructose.<ref>PMID:9882648</ref>
+== 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/s4/1s46_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=1s46 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The alpha-retaining amylosucrase from the glycoside hydrolase family 13 performs a transfer reaction of a glucosyl moiety from sucrose to an acceptor molecule. Amylosucrase has previously been shown to be able to use alpha-D-glucopyranosyl fluoride as a substrate, which suggested that it could also be used for trapping the reaction intermediate for crystallographic studies. In this paper, the crystal structure of the acid/base catalyst mutant, E328Q, with a covalently bound glucopyranosyl moiety is presented. Sucrose cocrystallized crystals were soaked with alpha-D-glucopyranosyl fluoride, which resulted in the trapping of a covalent intermediate in the active site of the enzyme. The structure is refined to a resolution of 2.2 A and showed that binding of the covalent intermediate resulted in a backbone movement of 1 A around the location of the nucleophile, Asp286. This structure reveals the first covalent intermediate of an alpha-retaining glycoside hydrolase where the glucosyl moiety is identical to the expected biologically relevant entity. Comparison to other enzymes with anticipated glucosylic covalent intermediates suggests that this structure is a representative model for such intermediates. Analysis of the active site shows how oligosaccharide binding disrupts the putative nucleophilic water binding site found in the hydrolases of the GH family 13. This reveals important parts of the structural background for the shift in function from hydrolase to transglycosidase seen in amylosucrase.
-===Covalent intermediate of the E328Q amylosucrase mutant===
+Crystal structure of the covalent intermediate of amylosucrase from Neisseria polysaccharea.,Jensen MH, Mirza O, Albenne C, Remaud-Simeon M, Monsan P, Gajhede M, Skov LK Biochemistry. 2004 Mar 23;43(11):3104-10. PMID:15023061<ref>PMID:15023061</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1s46" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_15023061}}, adds the Publication Abstract to the page
+*[[Amylase 3D structures|Amylase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 15023061 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_15023061}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-S46 is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Neisseria_polysaccharea Neisseria polysaccharea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S46 OCA].
-==Reference==
-<ref group="xtra">PMID:15023061</ref><references group="xtra"/>
-[[Category: Amylosucrase]]
 [[Category: Neisseria polysaccharea]]
-[[Category: Albenne, C.]]
+[[Category: Albenne C]]
-[[Category: Gajhede, M.]]
+[[Category: Gajhede M]]
-[[Category: Jensen, M H.]]
+[[Category: Jensen MH]]
-[[Category: Mirza, O.]]
+[[Category: Mirza O]]
-[[Category: Monsan, P.]]
+[[Category: Monsan P]]
-[[Category: Remaud-Simeon, M.]]
+[[Category: Remaud-Simeon M]]
-[[Category: Skov, L K.]]
+[[Category: Skov LK]]
-[[Category: Protein-glucopyranosyl covalent intermediate]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 22 14:56:32 2010''