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1red

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(New page: 200px<br /><applet load="1red" size="450" color="white" frame="true" align="right" spinBox="true" caption="1red, resolution 1.6&Aring;" /> '''ENDO-1,4-BETA-XYLANAS...)
Current revision (08:22, 1 May 2024) (edit) (undo)
 
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[[Image:1red.jpg|left|200px]]<br /><applet load="1red" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1red, resolution 1.6&Aring;" />
 
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'''ENDO-1,4-BETA-XYLANASE II COMPLEX WITH 4,5-EPOXYPENTYL-BETA-D-XYLOSIDE'''<br />
 
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==Overview==
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==ENDO-1,4-BETA-XYLANASE II COMPLEX WITH 4,5-EPOXYPENTYL-BETA-D-XYLOSIDE==
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The three-dimensional structures of endo-1,4-xylanase II (XYNII) from, Trichoderma reesei complexed with 4,5-epoxypentyl beta-D-xyloside, (X-O-C5),3,4-epoxybutyl beta-D-xyloside (X-O-C4), and 2,3-epoxypropyl, beta-D-xyloside (X-O-C3) were determined by X-ray crystallography., High-resolution measurement revealed clear electron densities for each, ligand. Both X-O-C5 and X-O-C3 were found to form a covalent bond with the, putative nucleophile Glu86. Unexpectedly, X-O-C4 was found to bind to the, putative acid/base catalyst Glu177. In all three complexes, clear, conformational changes were found in XYNII compared to the native, structure. These changes were largest in the X-O-C3 complex structure.
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<StructureSection load='1red' size='340' side='right'caption='[[1red]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[1red]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Trichoderma_reesei Trichoderma reesei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RED OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RED FirstGlance]. <br>
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1RED is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Hypocrea_jecorina Hypocrea jecorina] with C5X and BEZ as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1RED 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]] 1.6&#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=BEZ:BENZOIC+ACID'>BEZ</scene>, <scene name='pdbligand=C5X:4,5-EPOXYPENTYL-BETA-D-XYLOSIDE'>C5X</scene>, <scene name='pdbligand=PCA:PYROGLUTAMIC+ACID'>PCA</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=1red FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1red OCA], [https://pdbe.org/1red PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1red RCSB], [https://www.ebi.ac.uk/pdbsum/1red PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1red ProSAT]</span></td></tr>
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Covalent binding of three epoxyalkyl xylosides to the active site of endo-1,4-xylanase II from Trichoderma reesei., Havukainen R, Torronen A, Laitinen T, Rouvinen J, Biochemistry. 1996 Jul 23;35(29):9617-24. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8755744 8755744]
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</table>
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[[Category: Endo-1,4-beta-xylanase]]
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== Function ==
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[[Category: Hypocrea jecorina]]
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[https://www.uniprot.org/uniprot/XYN2_HYPJR XYN2_HYPJR] Glycoside hydrolase involved in the hydrolysis of xylan, a major plant cell wall hemicellulose made up of 1,4-beta-linked D-xylopyranose residues. Catalyzes the endohydrolysis of the main-chain 1,4-beta-glycosidic bonds connecting the xylose subunits yielding various xylooligosaccharides and xylose (PubMed:1369024, Ref.5). The catalysis proceeds by a double-displacement reaction mechanism with a putative covalent glycosyl-enzyme intermediate, with retention of the anomeric configuration (PubMed:7988708). Produces xylobiose and xylose as the main degradation products (PubMed:19556747).<ref>PMID:1369024</ref> <ref>PMID:19556747</ref> <ref>PMID:7988708</ref> <ref>PMID:1369024</ref>
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[[Category: Single protein]]
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== Evolutionary Conservation ==
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[[Category: Havukainen, R.]]
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[[Image:Consurf_key_small.gif|200px|right]]
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[[Category: Rouvinen, J.]]
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Check<jmol>
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[[Category: Torronen, A.]]
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<jmolCheckbox>
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[[Category: BEZ]]
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/re/1red_consurf.spt"</scriptWhenChecked>
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[[Category: C5X]]
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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[[Category: hydrolase]]
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<text>to colour the structure by Evolutionary Conservation</text>
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[[Category: xylan degradation]]
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</jmolCheckbox>
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[[Category: xylanase]]
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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=1red ConSurf].
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<div style="clear:both"></div>
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 01:31:19 2007''
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
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[[Category: Trichoderma reesei]]
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[[Category: Havukainen R]]
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[[Category: Rouvinen J]]
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[[Category: Torronen A]]

Current revision

ENDO-1,4-BETA-XYLANASE II COMPLEX WITH 4,5-EPOXYPENTYL-BETA-D-XYLOSIDE

PDB ID 1red

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