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2dep

From Proteopedia

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[[Image:2dep.jpg|left|200px]]<br /><applet load="2dep" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="2dep, resolution 1.80&Aring;" />
 
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'''Crystal Structure of xylanase B from Clostridium stercorarium F9'''<br />
 
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==Overview==
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==Crystal Structure of xylanase B from Clostridium stercorarium F9==
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Recombinant mature xylanase B from Clostridium stercorarium has been prepared and crystallized by the sitting-drop vapour-diffusion method using 4 mg ml(-1) purified enzyme, 10.3%(w/v) polyethylene glycol 1500, 8.6%(v/v) glycerol and 0.34 M non-detergent sulfobetaine 195. A suitable crystal grew after incubation for ten weeks at 293 K. The crystal belonged to space group P2(1)2(1)2(1), with unit-cell parameters a = 64.76, b = 96.60, c = 138.44 A. X-ray diffraction data were collected to 1.80 A resolution.
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<StructureSection load='2dep' size='340' side='right'caption='[[2dep]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[2dep]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoclostridium_stercorarium Thermoclostridium stercorarium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DEP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DEP FirstGlance]. <br>
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2DEP is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Clostridium_stercorarium Clostridium stercorarium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DEP 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]] 1.8&#8491;</td></tr>
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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=2dep FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dep OCA], [https://pdbe.org/2dep PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dep RCSB], [https://www.ebi.ac.uk/pdbsum/2dep PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dep ProSAT]</span></td></tr>
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==Reference==
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</table>
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Crystallization and preliminary X-ray analysis of xylanase B from Clostridium stercorarium., Nishimoto M, Fushinobu S, Miyanaga A, Wakagi T, Shoun H, Sakka K, Ohmiya K, Nirasawa S, Kitaoka M, Hayashi K, Acta Crystallogr D Biol Crystallogr. 2004 Feb;60(Pt 2):342-3. Epub 2004, Jan 23. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=14747719 14747719]
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== Function ==
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[[Category: Clostridium stercorarium]]
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[https://www.uniprot.org/uniprot/CEXY_THEST CEXY_THEST] Active toward xylan, carboxymethylcellulose, P-nitrophenyl-beta-D-xylopyranoside and P-nitrophenyl-beta-D-cellobioside.
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[[Category: Single protein]]
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== Evolutionary Conservation ==
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[[Category: Fushinobu, S.]]
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[[Image:Consurf_key_small.gif|200px|right]]
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[[Category: Hayashi, K.]]
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Check<jmol>
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[[Category: Kitaoka, M.]]
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<jmolCheckbox>
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[[Category: Miyanaga, A.]]
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/de/2dep_consurf.spt"</scriptWhenChecked>
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[[Category: Nishimoto, M.]]
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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[[Category: family 10]]
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<text>to colour the structure by Evolutionary Conservation</text>
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[[Category: glycosidase]]
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</jmolCheckbox>
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[[Category: national project on protein structural and functional analyses]]
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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=2dep ConSurf].
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[[Category: nppsfa]]
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<div style="clear:both"></div>
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[[Category: structural genomics]]
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__TOC__
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[[Category: xylan degradation]]
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</StructureSection>
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[[Category: Large Structures]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:58:02 2008''
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[[Category: Thermoclostridium stercorarium]]
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[[Category: Fushinobu S]]
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[[Category: Hayashi K]]
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[[Category: Kitaoka M]]
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[[Category: Miyanaga A]]
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[[Category: Nishimoto M]]

Current revision

Crystal Structure of xylanase B from Clostridium stercorarium F9

PDB ID 2dep

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