7drm: Difference between revisions
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==== | ==Structure of ATP-grasp ligase PsnB complexed with minimal precursor, Mg, and ADP== | ||
<StructureSection load='7drm' size='340' side='right'caption='[[7drm]]' scene=''> | <StructureSection load='7drm' size='340' side='right'caption='[[7drm]], [[Resolution|resolution]] 3.28Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br> | <table><tr><td colspan='2'>[[7drm]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Plesiocystis_pacifica_SIR-1 Plesiocystis pacifica SIR-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DRM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DRM FirstGlance]. <br> | ||
</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=7drm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7drm OCA], [https://pdbe.org/7drm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7drm RCSB], [https://www.ebi.ac.uk/pdbsum/7drm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7drm ProSAT]</span></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]] 3.28Å</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></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=7drm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7drm OCA], [https://pdbe.org/7drm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7drm RCSB], [https://www.ebi.ac.uk/pdbsum/7drm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7drm ProSAT]</span></td></tr> | |||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/A6G4D7_9DELT A6G4D7_9DELT] | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Graspetides, also known as omega-ester-containing peptides (OEPs), are a family of ribosomally synthesized and post-translationally modified peptides (RiPPs) bearing side chain-to-side chain macrolactone or macrolactam linkages. Here, we present the molecular details of precursor peptide recognition by the macrocyclase enzyme PsnB in the biosynthesis of plesiocin, a group 2 graspetide. Biochemical analysis revealed that, in contrast to other RiPPs, the core region of the plesiocin precursor peptide noticeably enhanced the enzyme-precursor interaction via the conserved glutamate residues. We obtained four crystal structures of symmetric or asymmetric PsnB dimers, including those with a bound core peptide and a nucleotide, and suggest that the highly conserved Arg213 at the enzyme active site specifically recognizes a ring-forming acidic residue before phosphorylation. Collectively, this study provides insights into the mechanism underlying substrate recognition in graspetide biosynthesis and lays a foundation for engineering new variants. | |||
Molecular mechanism underlying substrate recognition of the peptide macrocyclase PsnB.,Song I, Kim Y, Yu J, Go SY, Lee HG, Song WJ, Kim S Nat Chem Biol. 2021 Nov;17(11):1123-1131. doi: 10.1038/s41589-021-00855-x. Epub , 2021 Sep 2. PMID:34475564<ref>PMID:34475564</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 7drm" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: | [[Category: Plesiocystis pacifica SIR-1]] | ||
[[Category: Kim S]] | |||
[[Category: Song I]] | |||
[[Category: Song W]] | |||
[[Category: Yu J]] | |||
Latest revision as of 16:38, 29 November 2023
Structure of ATP-grasp ligase PsnB complexed with minimal precursor, Mg, and ADP
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