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5xgv

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The structure of Diels-Alderase PyrE3 in the biosynthetic pathway of pyrroindomycins

Structural highlights

5xgv is a 2 chain structure with sequence from Streptomyces rugosporus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.099Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

PYRE3_STRRG Involved in the biosynthesis of the spirotetramate antibiotics pyrroindomycins. Catalyzes the intramolecular cyclization forming the dialkyldecalin moiety in pyrroindomycins, via an endo-selective [4+2] cycloaddition reaction.^[1] ^[2]

Publication Abstract from PubMed

Here, we provide structural insights into PyrE3, a flavin-dependent [4 + 2] cyclase that catalyzes trans-decalin formation in the biosynthesis of pyrroindomycins. PyrE3 shares an architecture/domain organization head-to-tail similarity with the members of the family of para-hydroxybenzoate hydroxylase (pHBH)-fold monooxygenases, and possesses a flavin adenine dinucleotide (FAD)-binding domain, a middle domain, and a C-terminal thioredoxin-like domain. The FAD-binding domain forms a central hub of the protein structure, and binds with FAD in a "closed" conformation of pHBH-fold family monooxygenases known for their highly dynamic catalytic processes. FAD plays an essential structural role in PyrE3, where it is amenable to redox change; however, redox change has little effect on [4 + 2] cyclization activity. PyrE3 appears to selectively accommodate a tetramate-containing, linear polyene intermediate in a highly positively charged pocket, which is located at the interface between the FAD-binding domain and the middle domain, and can accelerate trans-decalin formation likely through an endo-selective [4 + 2] transition state.

Structural Insights into a Flavin-Dependent [4 + 2] Cyclase that Catalyzes trans-Decalin Formation in Pyrroindomycin Biosynthesis.,Zheng Q, Gong Y, Guo Y, Zhao Z, Wu Z, Zhou Z, Chen D, Pan L, Liu W Cell Chem Biol. 2018 Jun 21;25(6):718-727.e3. doi:, 10.1016/j.chembiol.2018.03.007. Epub 2018 Apr 12. PMID:29657086^[3]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Tian Z, Sun P, Yan Y, Wu Z, Zheng Q, Zhou S, Zhang H, Yu F, Jia X, Chen D, Mándi A, Kurtán T, Liu W. An enzymatic [4+2] cyclization cascade creates the pentacyclic core of pyrroindomycins. Nat Chem Biol. 2015 Apr;11(4):259-65. PMID:25730548 doi:10.1038/nchembio.1769
↑ Zheng Q, Gong Y, Guo Y, Zhao Z, Wu Z, Zhou Z, Chen D, Pan L, Liu W. Structural Insights into a Flavin-Dependent [4 + 2] Cyclase that Catalyzes trans-Decalin Formation in Pyrroindomycin Biosynthesis. Cell Chem Biol. 2018 Jun 21;25(6):718-727.e3. doi:, 10.1016/j.chembiol.2018.03.007. Epub 2018 Apr 12. PMID:29657086 doi:http://dx.doi.org/10.1016/j.chembiol.2018.03.007
↑ Zheng Q, Gong Y, Guo Y, Zhao Z, Wu Z, Zhou Z, Chen D, Pan L, Liu W. Structural Insights into a Flavin-Dependent [4 + 2] Cyclase that Catalyzes trans-Decalin Formation in Pyrroindomycin Biosynthesis. Cell Chem Biol. 2018 Jun 21;25(6):718-727.e3. doi:, 10.1016/j.chembiol.2018.03.007. Epub 2018 Apr 12. PMID:29657086 doi:http://dx.doi.org/10.1016/j.chembiol.2018.03.007

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5xgv"

Categories: Large Structures | Streptomyces rugosporus | Gong Y | Guo Y | Pan L

@@ Line 3: / Line 3: @@
 <StructureSection load='5xgv' size='340' side='right'caption='[[5xgv]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5xgv]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/'streptomyces_rugosporus' 'streptomyces rugosporus']. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XGV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XGV FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5xgv]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_rugosporus Streptomyces rugosporus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XGV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5XGV FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</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]] 2.099&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pyrE3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=295838 'Streptomyces rugosporus'])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene></td></tr>
-<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=5xgv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xgv OCA], [http://pdbe.org/5xgv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xgv RCSB], [http://www.ebi.ac.uk/pdbsum/5xgv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xgv 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=5xgv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xgv OCA], [https://pdbe.org/5xgv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5xgv RCSB], [https://www.ebi.ac.uk/pdbsum/5xgv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5xgv ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/PYRE3_STRRG PYRE3_STRRG] Involved in the biosynthesis of the spirotetramate antibiotics pyrroindomycins. Catalyzes the intramolecular cyclization forming the dialkyldecalin moiety in pyrroindomycins, via an endo-selective [4+2] cycloaddition reaction.<ref>PMID:25730548</ref> <ref>PMID:29657086</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 23: @@
 __TOC__
 </StructureSection>
-[[Category: Streptomyces rugosporus]]
 [[Category: Large Structures]]
-[[Category: Gong, Y]]
+[[Category: Streptomyces rugosporus]]
-[[Category: Guo, Y]]
+[[Category: Gong Y]]
-[[Category: Pan, L]]
+[[Category: Guo Y]]
-[[Category: Diels-alderase]]
+[[Category: Pan L]]
-[[Category: Oxidoreductase]]
-[[Category: Pyrroindomycin]]

5xgv

From Proteopedia

Current revision

The structure of Diels-Alderase PyrE3 in the biosynthetic pathway of pyrroindomycins

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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