7drp
From Proteopedia
(Difference between revisions)
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| - | ==== | + | ==Structure of ATP-grasp ligase PsnB complexed with phosphomimetic variant of minimal precursor, Mg, and ADP== |
| - | <StructureSection load='7drp' size='340' side='right'caption='[[7drp]]' scene=''> | + | <StructureSection load='7drp' size='340' side='right'caption='[[7drp]], [[Resolution|resolution]] 2.98Å' 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'>[[7drp]] 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=7DRP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DRP 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=7drp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7drp OCA], [https://pdbe.org/7drp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7drp RCSB], [https://www.ebi.ac.uk/pdbsum/7drp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7drp 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]] 2.98Å</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=DV9:(2S)-2-azanyl-6,6-bis(fluoranyl)-5-oxidanylidene-6-phosphono-hexanoic+acid'>DV9</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=7drp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7drp OCA], [https://pdbe.org/7drp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7drp RCSB], [https://www.ebi.ac.uk/pdbsum/7drp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7drp 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 7drp" 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]] | ||
Current revision
Structure of ATP-grasp ligase PsnB complexed with phosphomimetic variant of minimal precursor, Mg, and ADP
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