7w93: Difference between revisions
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==Crystal structure of E.coli pseudouridine kinase PsuK complexed with N1-methyl-pseudouridine== | ==Crystal structure of E.coli pseudouridine kinase PsuK complexed with N1-methyl-pseudouridine== | ||
<StructureSection load='7w93' size='340' side='right'caption='[[7w93]]' scene=''> | <StructureSection load='7w93' size='340' side='right'caption='[[7w93]], [[Resolution|resolution]] 1.90Å' 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=7W93 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7W93 FirstGlance]. <br> | <table><tr><td colspan='2'>[[7w93]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7W93 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7W93 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=7w93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7w93 OCA], [https://pdbe.org/7w93 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7w93 RCSB], [https://www.ebi.ac.uk/pdbsum/7w93 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7w93 ProSAT]</span></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8IZ:5-[(2S,3R,4S,5R)-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]-1-methyl-pyrimidine-2,4-dione'>8IZ</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</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=7w93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7w93 OCA], [https://pdbe.org/7w93 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7w93 RCSB], [https://www.ebi.ac.uk/pdbsum/7w93 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7w93 ProSAT]</span></td></tr> | |||
</table> | </table> | ||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Pseudouridine (Psi) is one of the most abundant RNA modifications in cellular RNAs that post-transcriptionally impact many aspects of RNA. However, the metabolic fate of modified RNA nucleotides has long been a question. A pseudouridine kinase (PsuK) and a pseudouridine monophosphate glycosylase (PsuG) in Escherichia coli were first characterized as involved in pseudouridine degradation by catalyzing the phosphorylation of pseudouridine to pseudouridine 5'-phosphate (PsiMP) and further hydrolyzing 5'-PsiMP to produce uracil and ribose 5'-phosphate. Recently, their homolog proteins in eukaryotes were also identified, which were named PUKI and PUMY in Arabidopsis. Here, we solved the crystal structures of apo-EcPsuK and its binary complex with Psi or N (1)-methyl-pseudouridine (m1Psi). The structure of EcPsuK showed a homodimer conformation assembled by its beta-thumb region. EcPsuK has an appropriate binding site with a series of hydrophilic and hydrophobic interactions for Psi. Moreover, our complex structure of EcPsuK-m1Psi suggested the binding pocket has an appropriate capacity for m1Psi. We also identified the monovalent ion-binding site and potential ATP-binding site. Our studies improved the understanding of the mechanism of Psi turnover. | |||
Structure Characterization of Escherichia coli Pseudouridine Kinase PsuK.,Li X, Li K, Guo W, Wen Y, Meng C, Wu B Front Microbiol. 2022 Jun 17;13:926099. doi: 10.3389/fmicb.2022.926099., eCollection 2022. PMID:35783380<ref>PMID:35783380</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 7w93" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Li | [[Category: Li, K J]] | ||
[[Category: Li | [[Category: Li, X J]] | ||
[[Category: Wu | [[Category: Wu, B X]] | ||
[[Category: Kinase]] | |||
[[Category: M1-pseudouridine]] | |||
[[Category: Mrna vaccine]] | |||
[[Category: Pseudouridine]] | |||
[[Category: Sugar]] | |||
[[Category: Sugar binding protein]] | |||
Revision as of 07:18, 20 July 2022
Crystal structure of E.coli pseudouridine kinase PsuK complexed with N1-methyl-pseudouridine
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