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1eom

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(New page: 200px<br /><applet load="1eom" size="450" color="white" frame="true" align="right" spinBox="true" caption="1eom, resolution 2.10&Aring;" /> '''CRYSTAL STRUCTURE OF...)
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[[Image:1eom.jpg|left|200px]]<br /><applet load="1eom" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1eom, resolution 2.10&Aring;" />
 
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'''CRYSTAL STRUCTURE OF THE COMPLEX OF ENDO-BETA-N-ACETYLGLUCOSAMINIDASE F3 WITH A BIANTENNARY COMPLEX OCTASACCHARIDE'''<br />
 
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==Overview==
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==CRYSTAL STRUCTURE OF THE COMPLEX OF ENDO-BETA-N-ACETYLGLUCOSAMINIDASE F3 WITH A BIANTENNARY COMPLEX OCTASACCHARIDE==
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Endo-beta-N-acetylglucosaminidase F(3) cleaves the beta(1-4) link between, the core GlcNAc's of asparagine-linked oligosaccharides, with specificity, for biantennary and triantennary complex glycans. The crystal structures, of Endo F(3) and the complex with its reaction product, the biantennary, octasaccharide, Gal-beta(1-4)-GlcNAc-beta(1-2)-Man-alpha(1-3)[Gal-beta(1-4)-GlcNAc-be, ta(1-2)-Man-alpha(1-6)]-Man-beta(1-4)-GlcNAc, have been determined to 1.8, and 2.1 A resolution, respectively. Comparison of the structure of Endo, F(3) with that of Endo F(1), which is specific for high-mannose, oligosaccharides, reveals highly distinct folds and amino acid, compositions at the oligosaccharide recognition sites. Binding of the, oligosaccharide to the protein does not affect the protein conformation., The conformation of the oligosaccharide is similar to that seen for other, biantennary oligosaccharides, with the exception of two links: the, Gal-beta(1-4)-GlcNAc link of the alpha(1-3) branch and the, GlcNAc-beta(1-2)-Man link of the alpha(1-6) branch. Especially the latter, link is highly distorted and energetically unfavorable. Only the, reducing-end GlcNAc and two Man's of the trimannose core are in direct, contact with the protein. This is in contrast with biochemical data for, Endo F(1) that shows that activity depends on the presence and identity of, sugar residues beyond the trimannose core. The substrate specificity of, Endo F(3) is based on steric exclusion of incompatible oligosaccharides, rather than on protein-carbohydrate interactions that are unique to, complexes with biantennary or triantennary complex glycans.
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<StructureSection load='1eom' size='340' side='right'caption='[[1eom]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[1eom]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Elizabethkingia_meningoseptica Elizabethkingia meningoseptica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EOM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1EOM FirstGlance]. <br>
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1EOM is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Elizabethkingia_meningoseptica Elizabethkingia meningoseptica] with SO4 as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Mannosyl-glycoprotein_endo-beta-N-acetylglucosaminidase Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.96 3.2.1.96] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1EOM OCA].
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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]] 2.1&#8491;</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=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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==Reference==
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1eom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1eom OCA], [https://pdbe.org/1eom PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1eom RCSB], [https://www.ebi.ac.uk/pdbsum/1eom PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1eom ProSAT]</span></td></tr>
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Structural basis for the substrate specificity of endo-beta-N-acetylglucosaminidase F(3)., Waddling CA, Plummer TH Jr, Tarentino AL, Van Roey P, Biochemistry. 2000 Jul 11;39(27):7878-85. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10891067 10891067]
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/EBA3_ELIME EBA3_ELIME] Endohydrolysis of the di-N-acetylchitobiosyl unit in high-mannose glycopeptides and glycoproteins. Hydrolyzes bi- and triantennary glycans. The presence of a core-bound fucose greatly augments endo F3 activity on biantennary and, presumably, triantennary oligosaccharides.
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/eo/1eom_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=1eom ConSurf].
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<div style="clear:both"></div>
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__TOC__
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</StructureSection>
[[Category: Elizabethkingia meningoseptica]]
[[Category: Elizabethkingia meningoseptica]]
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[[Category: Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase]]
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[[Category: Large Structures]]
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[[Category: Single protein]]
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[[Category: Plummer Jr TH]]
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[[Category: Jr., T.H.Plummer.]]
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[[Category: Tarentino AL]]
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[[Category: Roey, P.Van.]]
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[[Category: Van Roey P]]
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[[Category: Tarentino, A.L.]]
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[[Category: Waddling CA]]
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[[Category: Waddling, C.A.]]
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[[Category: SO4]]
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[[Category: (alpha/beta)-barrel]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 14:10:48 2007''
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Current revision

CRYSTAL STRUCTURE OF THE COMPLEX OF ENDO-BETA-N-ACETYLGLUCOSAMINIDASE F3 WITH A BIANTENNARY COMPLEX OCTASACCHARIDE

PDB ID 1eom

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