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5guc

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==Crystal structure of CotB2 (apo form) from Streptomyces melanosporofaciens==
==Crystal structure of CotB2 (apo form) from Streptomyces melanosporofaciens==
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<StructureSection load='5guc' size='340' side='right' caption='[[5guc]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
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<StructureSection load='5guc' size='340' side='right'caption='[[5guc]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[5guc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_25473 Atcc 25473]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GUC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GUC FirstGlance]. <br>
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<table><tr><td colspan='2'>[[5guc]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_melanosporofaciens Streptomyces melanosporofaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GUC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5GUC FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene></td></tr>
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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='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5gue|5gue]]</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=FMT:FORMIC+ACID'>FMT</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">CotB2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=67327 ATCC 25473])</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=5guc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5guc OCA], [https://pdbe.org/5guc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5guc RCSB], [https://www.ebi.ac.uk/pdbsum/5guc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5guc ProSAT]</span></td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lyase Lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.3.146 4.2.3.146] </span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5guc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5guc OCA], [http://pdbe.org/5guc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5guc RCSB], [http://www.ebi.ac.uk/pdbsum/5guc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5guc ProSAT]</span></td></tr>
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</table>
</table>
== Function ==
== Function ==
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[[http://www.uniprot.org/uniprot/COTB2_STRMJ COTB2_STRMJ]] Catalyzes the cyclization of the linear isoprenoid intermediate geranylgeranyl diphosphate to tricycclic cyclooctat-9-en-7-ol in the cyclooctatin biosynthesis pathway. Cyclooctatin is a potent inhibitor of lysophospholipase.<ref>PMID:19635410</ref> <ref>PMID:24914964</ref>
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[https://www.uniprot.org/uniprot/COTB2_STRMJ COTB2_STRMJ] Catalyzes the cyclization of the linear isoprenoid intermediate geranylgeranyl diphosphate to tricycclic cyclooctat-9-en-7-ol in the cyclooctatin biosynthesis pathway. Cyclooctatin is a potent inhibitor of lysophospholipase.<ref>PMID:19635410</ref> <ref>PMID:24914964</ref>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The diterpene cyclase CotB2 catalyzes the cyclization of geranylgeranyl diphosphate (GGPP) to the tricyclic cyclooctat-9-en-7-ol, which is characterized by a 5-8-5-fused ring skeleton. We have previously proposed a cyclization cascade involving a unique carbon-carbon bond rearrangement combined with multiple hydride shifts, all occurring at a single active site. Here, we report the first high-resolution X-ray crystal structure of CotB2 with bound substrate analog geranylgeranyl thiodiphosphate (GGSPP). In the GGSPP-bound form, GGSPP folds into a unique S-shaped conformation that probably reflects the substrate-bound state prior to ionization of the substrate GGPP. The folded framework of GGSPP is surrounded by hydrophobic residues and several aromatic and asparagine residues that are well-positioned to stabilize a series of reactive carbocation intermediates through a combination of cation-pi and dipole charge interactions. The combined crystal structures and mutagenesis-based biochemical assays provide a structural basis for exquisite control of ring formation and stereochemistry during CotB2 catalysis.
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Structural Insights into the CotB2-Catalyzed Cyclization of Geranylgeranyl Diphosphate to the Diterpene Cyclooctat-9-en-7-ol.,Tomita T, Kim SY, Teramoto K, Meguro A, Ozaki T, Yoshida A, Motoyoshi Y, Mori N, Ishigami K, Watanabe H, Nishiyama M, Kuzuyama T ACS Chem Biol. 2017 Jun 16;12(6):1621-1628. doi: 10.1021/acschembio.7b00154. Epub, 2017 May 2. PMID:28463490<ref>PMID:28463490</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 5guc" style="background-color:#fffaf0;"></div>
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== References ==
== References ==
<references/>
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Atcc 25473]]
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[[Category: Large Structures]]
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[[Category: Lyase]]
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[[Category: Streptomyces melanosporofaciens]]
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[[Category: Kim, S Y]]
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[[Category: Kim S-Y]]
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[[Category: Kuzuyama, T]]
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[[Category: Kuzuyama T]]
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[[Category: Nishiyama, M]]
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[[Category: Nishiyama M]]
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[[Category: Ozaki, T]]
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[[Category: Ozaki T]]
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[[Category: Tomita, T]]
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[[Category: Tomita T]]
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[[Category: Yoshida, A]]
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[[Category: Yoshida A]]
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[[Category: Biosynthetic protein]]
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[[Category: Diterpene cyclase]]
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[[Category: Terpene cyclase fold]]
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Current revision

Crystal structure of CotB2 (apo form) from Streptomyces melanosporofaciens

PDB ID 5guc

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