6jil: Difference between revisions
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New page: '''Unreleased structure''' The entry 6jil is ON HOLD Authors: Matoba, Y., Sugiyama, M. Description: Crystal structure of D-cycloserine synthetase DcsG [[Category: Unreleased Structures... |
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==Crystal structure of D-cycloserine synthetase DcsG== | |||
<StructureSection load='6jil' size='340' side='right'caption='[[6jil]], [[Resolution|resolution]] 2.32Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[6jil]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_lavendulae Streptomyces lavendulae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JIL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6JIL FirstGlance]. <br> | |||
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.32Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</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=6jil FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jil OCA], [https://pdbe.org/6jil PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6jil RCSB], [https://www.ebi.ac.uk/pdbsum/6jil PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6jil ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/DCSG_STRLA DCSG_STRLA] Involved in the biosynthesis of the antibiotic D-cycloserine (DCS), a cyclic structural analog of D-alanine, used as an antitubercular agent. Catalyzes the synthesis of D-cycloserine from O-ureido-D-serine. It reacts exclusively with O-ureido-D-serine.<ref>PMID:20086163</ref> <ref>PMID:23529730</ref> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
In the biosynthetic pathway of an anti-tubercular antibiotic D-cycloserine (D-CS), O-ureido-D-serine (D-OUS) is converted to D-CS. We have previously demonstrated that DcsG, classified into the ATP-grasp superfamily enzyme, catalyzes the ring formation to generate D-CS, which is accompanied by the cleavage of a bond in the urea moiety of D-OUS to remove a carbamoyl group. Although the general ATP-grasp enzymes catalyze an ATP-dependent ligation reaction between two substrates, DcsG catalyzes specifically the generation of an intramolecular covalent bond. In the present study, cyanate was found in the reaction mixture, suggesting that carbamoyl group is eliminated as an isocyanic acid during the reaction. By the crystallographic and mutational investigations of DcsG, we anticipate the residues necessary for the binding of D-OUS. An acylphosphate intermediate must be bound at the narrow pocket of DcsG in a folded conformation, inducing the bond cleavage and the new bond formation to generate cyanate and D-CS, respectively. | |||
Cyclization mechanism catalyzed by an ATP-grasp enzyme essential for D-cycloserine biosynthesis.,Matoba Y, Uda N, Kudo M, Sugiyama M FEBS J. 2019 Dec 3. doi: 10.1111/febs.15163. PMID:31793174<ref>PMID:31793174</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
[[Category: | </div> | ||
[[Category: | <div class="pdbe-citations 6jil" style="background-color:#fffaf0;"></div> | ||
[[Category: Matoba | == References == | ||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Large Structures]] | |||
[[Category: Streptomyces lavendulae]] | |||
[[Category: Matoba Y]] | |||
[[Category: Sugiyama M]] | |||
Latest revision as of 10:06, 23 October 2024
Crystal structure of D-cycloserine synthetase DcsG
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