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2y4s

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[[Image:2y4s.png|left|200px]]
 
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==BARLEY LIMIT DEXTRINASE IN COMPLEX WITH BETA-CYCLODEXTRIN==
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The line below this paragraph, containing "STRUCTURE_2y4s", creates the "Structure Box" on the page.
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<StructureSection load='2y4s' size='340' side='right'caption='[[2y4s]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2y4s]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Hordeum_vulgare Hordeum vulgare]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2x4b 2x4b]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y4S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Y4S FirstGlance]. <br>
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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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=PRD_900012:beta-cyclodextrin'>PRD_900012</scene></td></tr>
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{{STRUCTURE_2y4s| PDB=2y4s | SCENE= }}
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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=2y4s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y4s OCA], [https://pdbe.org/2y4s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2y4s RCSB], [https://www.ebi.ac.uk/pdbsum/2y4s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2y4s ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/Q9S7S8_HORVU Q9S7S8_HORVU]
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Barley limit dextrinase [Hordeum vulgare limit dextrinase (HvLD)] catalyzes the hydrolysis of alpha-1,6 glucosidic linkages in limit dextrins. This activity plays a role in starch degradation during germination and presumably in starch biosynthesis during grain filling. The crystal structures of HvLD in complex with the competitive inhibitors alpha-cyclodextrin (CD) and beta-CD are solved and refined to 2.5 A and 2.1 A, respectively, and are the first structures of a limit dextrinase. HvLD belongs to glycoside hydrolase 13 family and is composed of four domains: an immunoglobulin-like N-terminal eight-stranded beta-sandwich domain, a six-stranded beta-sandwich domain belonging to the carbohydrate binding module 48 family, a catalytic (beta/alpha)(8)-like barrel domain that lacks alpha-helix 5, and a C-terminal eight-stranded beta-sandwich domain of unknown function. The CDs are bound at the active site occupying carbohydrate binding subsites +1 and +2. A glycerol and three water molecules mimic a glucose residue at subsite -1, thereby identifying residues involved in catalysis. The bulky Met440, a unique residue at its position among alpha-1,6 acting enzymes, obstructs subsite -4. The steric hindrance observed is proposed to affect substrate specificity and to cause a low activity of HvLD towards amylopectin. An extended loop (Asp513-Asn520) between beta5 and beta6 of the catalytic domain also seems to influence substrate specificity and to give HvLD a higher affinity for alpha-CD than pullulanases. The crystal structures additionally provide new insight into cation sites and the concerted action of the battery of hydrolytic enzymes in starch degradation.
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===BARLEY LIMIT DEXTRINASE IN COMPLEX WITH BETA-CYCLODEXTRIN===
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Crystal structure of an essential enzyme in seed starch degradation: barley limit dextrinase in complex with cyclodextrins.,Vester-Christensen MB, Abou Hachem M, Svensson B, Henriksen A J Mol Biol. 2010 Nov 12;403(5):739-50. Epub 2010 Sep 21. PMID:20863834<ref>PMID:20863834</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 2y4s" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 20863834 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_20863834}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[2y4s]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hordeum_vulgare Hordeum vulgare]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2x4b 2x4b]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y4S OCA].
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==Reference==
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<ref group="xtra">PMID:20863834</ref><ref group="xtra">PMID:19733243</ref><references group="xtra"/>
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[[Category: Hordeum vulgare]]
[[Category: Hordeum vulgare]]
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[[Category: Pullulanase]]
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[[Category: Large Structures]]
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[[Category: Hachem, M A.]]
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[[Category: Hachem MA]]
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[[Category: Henriksen, A.]]
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[[Category: Henriksen A]]
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[[Category: Svensson, B.]]
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[[Category: Svensson B]]
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[[Category: Vester-Christensen, M B.]]
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[[Category: Vester-Christensen MB]]

Current revision

BARLEY LIMIT DEXTRINASE IN COMPLEX WITH BETA-CYCLODEXTRIN

PDB ID 2y4s

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