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1k1y

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[[Image:1k1y.gif|left|200px]]<br /><applet load="1k1y" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="1k1y, resolution 2.40&Aring;" />
 
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'''Crystal structure of thermococcus litoralis 4-alpha-glucanotransferase complexed with acarbose'''<br />
 
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==Overview==
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==Crystal structure of thermococcus litoralis 4-alpha-glucanotransferase complexed with acarbose==
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Thermococcus litoralis 4-alpha-glucanotransferase (TLGT) belongs to glucoside hydrolase family 57 and catalyzes the disproportionation of amylose and the formation of large cyclic alpha-1,4-glucan (cycloamylose) from linear amylose. We determined the crystal structure of TLGT with and without an inhibitor, acarbose. TLGT is composed of two domains: an N-terminal domain (domain I), which contains a (beta/alpha)7 barrel fold, and a C-terminal domain (domain II), which has a twisted beta-sandwich fold. In the structure of TLGT complexed with acarbose, the inhibitor was bound at the cleft within domain I, indicating that domain I is a catalytic domain of TLGT. The acarbose-bound structure also clarified that Glu123 and Asp214 were the catalytic nucleophile and acid/base catalyst, respectively, and revealed the residues involved in substrate binding. It seemed that TLGT produces large cyclic glucans by preventing the production of small cyclic glucans by steric hindrance, which is achieved by three lids protruding into the active site cleft, as well as an extended active site cleft. Interestingly, domain I of TLGT shares some structural features with the catalytic domain of Golgi alpha-mannosidase from Drosophila melanogaster, which belongs to glucoside hydrolase family 38. Furthermore, the catalytic residue of the two enzymes is located in the same position. These observations suggest that families 57 and 38 evolved from a common ancestor.
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<StructureSection load='1k1y' size='340' side='right'caption='[[1k1y]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[1k1y]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermococcus_litoralis Thermococcus litoralis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1K1Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1K1Y FirstGlance]. <br>
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1K1Y is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermococcus_litoralis Thermococcus litoralis] with <scene name='pdbligand=ACR:'>ACR</scene>, <scene name='pdbligand=MAL:'>MAL</scene>, <scene name='pdbligand=CA:'>CA</scene> and <scene name='pdbligand=TRS:'>TRS</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/4-alpha-glucanotransferase 4-alpha-glucanotransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.25 2.4.1.25] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1K1Y 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]] 2.4&#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=AC1:6-METHYL-5-(4,5,6-TRIHYDROXY-3-HYDROXYMETHYL-CYCLOHEX-2-ENYLAMINO)-TETRAHYDRO-PYRAN-2,3,4-TRIOL'>AC1</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=PRD_900001:alpha-maltose'>PRD_900001</scene>, <scene name='pdbligand=PRD_900007:alpha-acarbose'>PRD_900007</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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=1k1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1k1y OCA], [https://pdbe.org/1k1y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1k1y RCSB], [https://www.ebi.ac.uk/pdbsum/1k1y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1k1y ProSAT]</span></td></tr>
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Crystal structures of 4-alpha-glucanotransferase from Thermococcus litoralis and its complex with an inhibitor., Imamura H, Fushinobu S, Yamamoto M, Kumasaka T, Jeon BS, Wakagi T, Matsuzawa H, J Biol Chem. 2003 May 23;278(21):19378-86. Epub 2003 Mar 4. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12618437 12618437]
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</table>
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[[Category: 4-alpha-glucanotransferase]]
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== Function ==
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[[Category: Single protein]]
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[https://www.uniprot.org/uniprot/MALQ_THELN MALQ_THELN] Catalyzes the transglycosylation of maltooligosaccharides, yielding maltooligosaccharides of various lengths and glucose. Maltose and glucose can be used as acceptors in the transfer reaction.<ref>PMID:10348846</ref>
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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/k1/1k1y_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=1k1y ConSurf].
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<div style="clear:both"></div>
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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]]
[[Category: Thermococcus litoralis]]
[[Category: Thermococcus litoralis]]
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[[Category: Fushinobu, S.]]
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[[Category: Fushinobu S]]
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[[Category: Imamura, H.]]
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[[Category: Imamura H]]
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[[Category: Jeon, B S.]]
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[[Category: Jeon BS]]
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[[Category: Kumasaka, T.]]
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[[Category: Kumasaka T]]
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[[Category: Matsuzawa, H.]]
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[[Category: Matsuzawa H]]
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[[Category: Wakagi, T.]]
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[[Category: Wakagi T]]
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[[Category: Yamamoto, M.]]
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[[Category: Yamamoto M]]
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[[Category: ACR]]
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[[Category: CA]]
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[[Category: MAL]]
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[[Category: TRS]]
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[[Category: 4-alpha-glucanotransferase complexed with acarbose]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 13:29:09 2008''
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Current revision

Crystal structure of thermococcus litoralis 4-alpha-glucanotransferase complexed with acarbose

PDB ID 1k1y

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