View source for 9o4v


==RNase A in complex with Pseudouridine Vanadate and decavanadates==
<StructureSection load='9o4v' size='340' side='right'caption='[[9o4v]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[9o4v]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9O4V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9O4V 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]] 1.7&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FJF:5-[(2~{S},3~{R},4~{S},5~{R})-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]-1~{H}-pyrimidine-2,4-dione'>FJF</scene>, <scene name='pdbligand=VVO:oxovanadium(2+)'>VVO</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=9o4v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9o4v OCA], [https://pdbe.org/9o4v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9o4v RCSB], [https://www.ebi.ac.uk/pdbsum/9o4v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9o4v ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/RNAS1_BOVIN RNAS1_BOVIN] Endonuclease that catalyzes the cleavage of RNA on the 3' side of pyrimidine nucleotides. Acts on single stranded and double stranded RNA.<ref>PMID:7479688</ref> 
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
In clinical uses, RNA must maintain its integrity in serum that contains ribonucleases (RNases), especially RNase 1, which is a human homolog of RNase A. These omnipresent enzymes catalyze the cleavage of the P-O(5'') bond on the 3' side of pyrimidine residues. Pseudouridine (Psi) is the most abundant modified nucleoside in natural RNA. The substitution of uridine (U) with Psi or N (1)âmethylpseudouridine (m(1)Psi) reduces the immunogenicity of mRNA and increases ribosomal translation, and these modified nucleosides are key components of RNA-based vaccines. Here, we assessed the ability of RNase A and RNase 1 to catalyze the cleavage of the P-O(5'') bond on the 3' side of Psi and m(1)Psi. We find that these enzymes catalyze the cleavage of UpA up to 10âfold more efficiently than the cleavage of PsipA or m(1)PsipA. X-ray crystallography of enzyme-bound nucleoside 2',3'âcyclic vanadate complexes and molecular dynamics simulations of enzyme.dinucleotide complexes show that U, Psi, and m(1)Psi bind to RNase A and RNase 1 in a similar manner. Quantum chemistry calculations suggested that the higher reactivity of UpA is intrinsic, arising from an inductive effect that decreases the pK (a) of the 2'âhydroxy group of U and enhances its nucleophilicity toward the P-O(5'') bond. Experimentally, we found that UpA does indeed undergo spontaneous hydrolysis faster than does m(1)PsipA. Our findings inform the continuing development of RNA-based vaccines and therapeutic agents.

Pseudouridine Residues as Substrates for Serum Ribonucleases.,Gutierrez CS, Silkenath B, Kojasoy V, Pich JA, Lim DC, Raines RT RNA. 2025 Aug 20:rna.080404.125. doi: 10.1261/rna.080404.125. PMID:40835455<ref>PMID:40835455</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 9o4v" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Bos taurus]]
[[Category: Large Structures]]
[[Category: Gutierrez CS]]
[[Category: Kojasoy V]]
[[Category: Lim DC]]
[[Category: Raines RT]]
[[Category: Silkenath B]]