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4okk

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Revision as of 07:30, 25 January 2023

Crystal structure of RNase AS from M tuberculosis in complex with UMP

Structural highlights

4okk is a 2 chain structure with sequence from Mycobacterium tuberculosis. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

EXRBN_MYCTU Exonuclease that cleaves single-stranded 3' overhangs of double-stranded RNA. Has no activity with 5' overhangs. Has negligible endonuclease activity. Can bind ATP, dATP and AMP (in vitro); the nucleotide occupies the predicted substrate binding site.^[1]

Publication Abstract from PubMed

The cell-envelope of Mycobacterium tuberculosis plays a key role in bacterial virulence and antibiotic resistance. Little is known about the molecular mechanisms of regulation of cell-envelope formation. Here, we elucidate functional and structural properties of RNase AS, which modulates M. tuberculosis cell-envelope properties and strongly impacts bacterial virulence in vivo. The structure of RNase AS reveals a resemblance to RNase T from Escherichia coli, an RNase of the DEDD family involved in RNA maturation. We show that RNase AS acts as a 3'-5'-exoribonuclease that specifically hydrolyzes adenylate-containing RNA sequences. Also, crystal structures of complexes with AMP and UMP reveal the structural basis for the observed enzyme specificity. Notably, RNase AS shows a mechanism of substrate recruitment, based on the recognition of the hydrogen bond donor NH2 group of adenine. Our work opens a field for the design of drugs able to reduce bacterial virulence in vivo.

Structure and Function of RNase AS, a Polyadenylate-Specific Exoribonuclease Affecting Mycobacterial Virulence In Vivo.,Romano M, van de Weerd R, Brouwer FC, Roviello GN, Lacroix R, Sparrius M, van den Brink-van Stempvoort G, Maaskant JJ, van der Sar AM, Appelmelk BJ, Geurtsen JJ, Berisio R Structure. 2014 May 6;22(5):719-30. doi: 10.1016/j.str.2014.01.014. Epub 2014 Apr, 3. PMID:24704253^[2]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Abendroth J, Ollodart A, Andrews ES, Myler PJ, Staker BL, Edwards TE, Arcus VL, Grundner C. Mycobacterium tuberculosis Rv2179c establishes a new exoribonuclease family with broad phylogenetic distribution. J Biol Chem. 2013 Dec 4. PMID:24311791 doi:http://dx.doi.org/10.1074/jbc.M113.525683
↑ Romano M, van de Weerd R, Brouwer FC, Roviello GN, Lacroix R, Sparrius M, van den Brink-van Stempvoort G, Maaskant JJ, van der Sar AM, Appelmelk BJ, Geurtsen JJ, Berisio R. Structure and Function of RNase AS, a Polyadenylate-Specific Exoribonuclease Affecting Mycobacterial Virulence In Vivo. Structure. 2014 May 6;22(5):719-30. doi: 10.1016/j.str.2014.01.014. Epub 2014 Apr, 3. PMID:24704253 doi:http://dx.doi.org/10.1016/j.str.2014.01.014

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4okk"

@@ Line 3: / Line 3: @@
 <StructureSection load='4okk' size='340' side='right'caption='[[4okk]], [[Resolution|resolution]] 2.21&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4okk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_tuberculosis"_(zopf_1883)_klein_1884 "bacillus tuberculosis" (zopf 1883) klein 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OKK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4OKK FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4okk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OKK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4OKK FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=U5P:URIDINE-5-MONOPHOSPHATE'>U5P</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=U5P:URIDINE-5-MONOPHOSPHATE'>U5P</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4oke|4oke]], [[4okj|4okj]]</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=4okk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4okk OCA], [https://pdbe.org/4okk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4okk RCSB], [https://www.ebi.ac.uk/pdbsum/4okk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4okk ProSAT]</span></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Rv2179c, MT2234.1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1773 "Bacillus tuberculosis" (Zopf 1883) Klein 1884])</td></tr>
-<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=4okk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4okk OCA], [http://pdbe.org/4okk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4okk RCSB], [http://www.ebi.ac.uk/pdbsum/4okk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4okk ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/EXRBN_MYCTU EXRBN_MYCTU]] Exonuclease that cleaves single-stranded 3' overhangs of double-stranded RNA. Has no activity with 5' overhangs. Has negligible endonuclease activity. Can bind ATP, dATP and AMP (in vitro); the nucleotide occupies the predicted substrate binding site.<ref>PMID:24311791</ref>
+[https://www.uniprot.org/uniprot/EXRBN_MYCTU EXRBN_MYCTU] Exonuclease that cleaves single-stranded 3' overhangs of double-stranded RNA. Has no activity with 5' overhangs. Has negligible endonuclease activity. Can bind ATP, dATP and AMP (in vitro); the nucleotide occupies the predicted substrate binding site.<ref>PMID:24311791</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 25: / Line 23: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Appelmelk, B J]]
+[[Category: Mycobacterium tuberculosis]]
-[[Category: Berisio, R]]
+[[Category: Appelmelk BJ]]
-[[Category: Brouwer, F C.C]]
+[[Category: Berisio R]]
-[[Category: Geurtsen, J J]]
+[[Category: Brouwer FCC]]
-[[Category: Lacroix, R]]
+[[Category: Geurtsen JJ]]
-[[Category: Maaskant, J J]]
+[[Category: Lacroix R]]
-[[Category: Romano, M]]
+[[Category: Maaskant JJ]]
-[[Category: Roviello, G N]]
+[[Category: Romano M]]
-[[Category: Sar, A M.van der]]
+[[Category: Roviello GN]]
-[[Category: Sparrius, M]]
+[[Category: Sparrius M]]
-[[Category: Stempvoort, G van den Brink-van]]
+[[Category: Van de Weerd R]]
-[[Category: Weerd, R van de]]
+[[Category: Van den Brink-van Stempvoort G]]
-[[Category: Alpha/beta fold]]
+[[Category: Van der Sar AM]]
-[[Category: Exoribonuclease]]
-[[Category: Hydrolase]]

4okk

From Proteopedia

Revision as of 07:30, 25 January 2023

Crystal structure of RNase AS from M tuberculosis in complex with UMP

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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