4i4j: Difference between revisions

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<StructureSection load='4i4j' size='340' side='right'caption='[[4i4j]], [[Resolution|resolution]] 2.78&Aring;' scene=''>
<StructureSection load='4i4j' size='340' side='right'caption='[[4i4j]], [[Resolution|resolution]] 2.78&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[4i4j]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/"actinomyces_globisporus"_krasil'nikov_1941 "actinomyces globisporus" krasil'nikov 1941]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I4J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4I4J FirstGlance]. <br>
<table><tr><td colspan='2'>[[4i4j]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_globisporus Streptomyces globisporus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I4J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4I4J FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=TAR:D(-)-TARTARIC+ACID'>TAR</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.784&#8491;</td></tr>
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=TAR:D(-)-TARTARIC+ACID'>TAR</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4i4j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4i4j OCA], [https://pdbe.org/4i4j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4i4j RCSB], [https://www.ebi.ac.uk/pdbsum/4i4j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4i4j ProSAT]</span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4i4j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4i4j OCA], [https://pdbe.org/4i4j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4i4j RCSB], [https://www.ebi.ac.uk/pdbsum/4i4j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4i4j ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Function ==
== Publication Abstract from PubMed ==
[https://www.uniprot.org/uniprot/Q8GME8_STRGL Q8GME8_STRGL]
Enediynes are potent natural product anticancer antibiotics, and are classified as 9- or 10-membered according to the size of their enediyne core carbon skeleton. Both 9- and 10-membered enediyne cores are biosynthesized by the enediyne polyketide synthase (PKSE), thioesterase (TE), and PKSE-associated enzymes. Although the divergence between 9- and 10-membered enediyne core biosynthesis remains unclear, it has been observed that nascent polyketide intermediates, tethered to the acyl carrier protein (ACP) domain of PKSE, could be released by TE in the absence of the PKSE-associated enzymes. In this study, we determined the crystal structure of SgcE10, the TE that participates in the biosynthesis of the 9-membered enediyne C-1027. Structural comparison of SgcE10 with CalE7 and DynE7, two TEs that participate in the biosynthesis of the 10-membered enediynes calicheamicin and dynemicin, respectively, revealed that they share a common alpha/beta hot-dog fold. The amino acids involved in both substrate binding and catalysis are conserved among SgcE10, CalE7, and DynE7. The volume and the shape of the substrate-binding channel and active site in SgcE10, CalE7, and DynE7 confirm that TEs from both 9- and 10-membered enediyne biosynthetic machineries bind the linear form of similar ACP-tethered polyene intermediates. Taken together, these findings further support the proposal that the divergence between 9- and 10-membered enediyne core biosynthesis occurs beyond PKSE and TE catalysis.
 
Crystal Structure of Thioesterase SgcE10 Supporting Common Polyene Intermediates in 9- and 10-Membered Enediyne Core Biosynthesis.,Annaval T, Rudolf JD, Chang CY, Lohman JR, Kim Y, Bigelow L, Jedrzejczak R, Babnigg G, Joachimiak A, Phillips GN Jr, Shen B ACS Omega. 2017 Aug 31;2(8):5159-5169. doi: 10.1021/acsomega.7b00933. Epub 2017, Aug 30. PMID:28884166<ref>PMID:28884166</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 4i4j" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
*[[Thioesterase 3D structures|Thioesterase 3D structures]]
*[[Thioesterase 3D structures|Thioesterase 3D structures]]
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Actinomyces globisporus krasil'nikov 1941]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Babnigg, J]]
[[Category: Streptomyces globisporus]]
[[Category: Bearden, J]]
[[Category: Babnigg J]]
[[Category: Bigelow, L]]
[[Category: Bearden J]]
[[Category: Bingman, C A]]
[[Category: Bigelow L]]
[[Category: Joachimiak, A]]
[[Category: Bingman CA]]
[[Category: Kim, Y]]
[[Category: Joachimiak A]]
[[Category: Lohman, J]]
[[Category: Kim Y]]
[[Category: Structural genomic]]
[[Category: Lohman J]]
[[Category: Ma, M]]
[[Category: Ma M]]
[[Category: NatPro, Enzyme Discovery for Natural Product Biosynthesis]]
[[Category: Phillips Jr GN]]
[[Category: Phillips, G N]]
[[Category: Shen B]]
[[Category: Shen, B]]
[[Category: Yennamalli R]]
[[Category: Yennamalli, R]]
[[Category: Alpha-beta fold]]
[[Category: Enzyme discovery for natural product biosynthesis]]
[[Category: Esterase]]
[[Category: Hot-dog fold]]
[[Category: Hydrolase]]
[[Category: Mcsg]]
[[Category: Natpro]]
[[Category: Psi-biology]]

Revision as of 11:49, 7 February 2024

The structure of SgcE10, the ACP-polyene thioesterase involved in C-1027 biosynthesisThe structure of SgcE10, the ACP-polyene thioesterase involved in C-1027 biosynthesis

Structural highlights

4i4j is a 8 chain structure with sequence from Streptomyces globisporus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.784Å
Ligands:, , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q8GME8_STRGL

See Also

4i4j, resolution 2.78Å

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OCA
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