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4jzs

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==Crystal structure of the Bacillus subtilis pyrophosphohydrolase BsRppH (E68A mutant)==
==Crystal structure of the Bacillus subtilis pyrophosphohydrolase BsRppH (E68A mutant)==
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<StructureSection load='4jzs' size='340' side='right' caption='[[4jzs]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
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<StructureSection load='4jzs' size='340' side='right'caption='[[4jzs]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4jzs]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JZS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4JZS FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4jzs]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JZS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4JZS FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4jzt|4jzt]], [[4jzu|4jzu]], [[4jzv|4jzv]]</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">BSU30630, mutTA, ytkD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224308 Bacillus subtilis subsp. subtilis str. 168])</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4jzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jzs OCA], [https://pdbe.org/4jzs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4jzs RCSB], [https://www.ebi.ac.uk/pdbsum/4jzs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4jzs ProSAT]</span></td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/8-oxo-dGTP_diphosphatase 8-oxo-dGTP diphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.55 3.6.1.55] </span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4jzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jzs OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4jzs RCSB], [http://www.ebi.ac.uk/pdbsum/4jzs PDBsum]</span></td></tr>
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</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/YTKD_BACSU YTKD_BACSU]
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The initiation of mRNA degradation often requires deprotection of its 5' end. In eukaryotes, the 5'-methylguanosine (cap) structure is principally removed by the Nudix family decapping enzyme Dcp2, yielding a 5'-monophosphorylated RNA that is a substrate for 5' exoribonucleases. In bacteria, the 5'-triphosphate group of primary transcripts is also converted to a 5' monophosphate by a Nudix protein called RNA pyrophosphohydrolase (RppH), allowing access to both endo- and 5' exoribonucleases. Here we present the crystal structures of Bacillus subtilis RppH (BsRppH) bound to GTP and to a triphosphorylated dinucleotide RNA. In contrast to Bdellovibrio bacteriovorus RppH, which recognizes the first nucleotide of its RNA targets, the B. subtilis enzyme has a binding pocket that prefers guanosine residues in the second position of its substrates. The identification of sequence specificity for RppH in an internal position was a highly unexpected result. NMR chemical shift mapping in solution shows that at least three nucleotides are required for unambiguous binding of RNA. Biochemical assays of BsRppH on RNA substrates with single-base-mutation changes in the first four nucleotides confirm the importance of guanosine in position two for optimal enzyme activity. Our experiments highlight important structural and functional differences between BsRppH and the RNA deprotection enzymes of distantly related bacteria.
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Bacillus subtilis RNA deprotection enzyme RppH recognizes guanosine in the second position of its substrates.,Piton J, Larue V, Thillier Y, Dorleans A, Pellegrini O, Li de la Sierra-Gallay I, Vasseur JJ, Debart F, Tisne C, Condon C Proc Natl Acad Sci U S A. 2013 Apr 22. PMID:23610407<ref>PMID:23610407</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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==See Also==
==See Also==
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*[[7%2C8-dihydro-8-oxoguanine triphosphatase|7%2C8-dihydro-8-oxoguanine triphosphatase]]
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*[[7%2C8-dihydro-8-oxoguanine triphosphatase 3D structures|7%2C8-dihydro-8-oxoguanine triphosphatase 3D structures]]
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: 8-oxo-dGTP diphosphatase]]
 
[[Category: Bacillus subtilis subsp. subtilis str. 168]]
[[Category: Bacillus subtilis subsp. subtilis str. 168]]
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[[Category: Condon, C]]
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[[Category: Large Structures]]
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[[Category: Debart, F]]
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[[Category: Condon C]]
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[[Category: Dorleans, A]]
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[[Category: Debart F]]
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[[Category: Larue, V]]
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[[Category: Dorleans A]]
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[[Category: Pellegrini, O]]
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[[Category: Larue V]]
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[[Category: Piton, J]]
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[[Category: Li de la Sierra-Gallay I]]
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[[Category: Sierra-Gallay, I Li de la]]
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[[Category: Pellegrini O]]
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[[Category: Thillier, Y]]
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[[Category: Piton J]]
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[[Category: Tisne, C]]
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[[Category: Thillier Y]]
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[[Category: Vasseur, J J]]
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[[Category: Tisne C]]
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[[Category: Cytosol]]
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[[Category: Vasseur JJ]]
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[[Category: Hydrolase]]
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[[Category: Nudix hydrolase]]
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[[Category: Rna pyrophosphohydrolase]]
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[[Category: Rpph]]
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Current revision

Crystal structure of the Bacillus subtilis pyrophosphohydrolase BsRppH (E68A mutant)

PDB ID 4jzs

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