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5wzf

From Proteopedia

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Current revision

Crystal structure of Mycobacterium tuberculosis VapC20 (Rv2549c), Sarcin-Ricin loop cleaving toxin

Structural highlights

5wzf is a 2 chain structure with sequence from Mycobacterium tuberculosis H37Rv. 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

VPC20_MYCTO Toxic component of a toxin-antitoxin (TA) module. An endoribonuclease that cleaves 23S rRNA in the sarcin-ricin loop (SRL). The SRL sequence is highly conserved and is implicated in GTP hydrolysis by EF-Tu and EF-G. Acts on purified ribosomes but not on isolated RNA. Its toxic effect is neutralized by coexpression with cognate antitoxin VapB20.[UniProtKB:P95004][HAMAP-Rule:MF_00265]

Publication Abstract from PubMed

VapBCs, virulence-associated proteins, are the most abundant type II toxin-antitoxin (TA) systems in prokaryotes. Under normal conditions, toxin and antitoxin interact to form a heterooctameric complex, which upon binding to operator sites, inhibits their own expression. Under stress conditions, the VapB antitoxin is degraded by cellular proteases to release a free VapC toxin, which in turn inhibits cell growth mainly by targeting protein translation. However, the intermediate steps involved in the assembly of the heterooctameric complex have not been resolved. Here, we report a 1.75 A resolution crystal structure of VapC20, a Sarcin-Ricin loop cleaving toxin from type II TA system of Mycobacterium tuberculosis. Using analytical ultracentrifugation (AUC) studies, we show that VapC20 exists as a homodimer in solution. The structural analysis of VapC homologs further suggests that VapCs form homodimers. We demonstrate that VapC20 is an obligate homodimer, and its self-association is critical for its folding and activity. Surface plasmon resonance experiments suggest that VapC20 interacts with its cognate antitoxin VapB20 to form a stable complex with nanomolar affinity. A high association rate coupled with a very slow dissociation rate ensures minimal toxicity under normal growth conditions. AUC studies reveal that VapB20 also exists as a homodimer in solution and further associates with VapC20 dimers to form heterotetramers and heterooctamers in a concentration-dependent manner. The results presented here provide valuable insights into the assembly of VapBC family of toxins which is essential for their function and regulation. This article is protected by copyright. All rights reserved.

Crystal structure of Mycobacterium tuberculosis VapC20 toxin and its interactions with cognate antitoxin, VapB20, suggest a model for toxin-antitoxin assembly.,Deep A, Kaundal S, Agarwal S, Singh R, Thakur KG FEBS J. 2017 Oct 7. doi: 10.1111/febs.14289. PMID:28986943^[1]

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

References

↑ Deep A, Kaundal S, Agarwal S, Singh R, Thakur KG. Crystal structure of Mycobacterium tuberculosis VapC20 toxin and its interactions with cognate antitoxin, VapB20, suggest a model for toxin-antitoxin assembly. FEBS J. 2017 Oct 7. doi: 10.1111/febs.14289. PMID:28986943 doi:http://dx.doi.org/10.1111/febs.14289

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5wzf"

Categories: Large Structures | Mycobacterium tuberculosis H37Rv | Deep A | Thakur KG

@@ Line 1: / Line 1: @@
 ==Crystal structure of Mycobacterium tuberculosis VapC20 (Rv2549c), Sarcin-Ricin loop cleaving toxin==
-<StructureSection load='5wzf' size='340' side='right' caption='[[5wzf]], [[Resolution|resolution]] 1.75&Aring;' scene=''>
+<StructureSection load='5wzf' size='340' side='right'caption='[[5wzf]], [[Resolution|resolution]] 1.75&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5wzf]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WZF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WZF FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5wzf]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis_H37Rv Mycobacterium tuberculosis H37Rv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WZF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5WZF FirstGlance]. <br>
-</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSO:S-HYDROXYCYSTEINE'>CSO</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CSO:S-HYDROXYCYSTEINE'>CSO</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5wz4|5wz4]]</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=5wzf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wzf OCA], [https://pdbe.org/5wzf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5wzf RCSB], [https://www.ebi.ac.uk/pdbsum/5wzf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5wzf ProSAT]</span></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=5wzf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wzf OCA], [http://pdbe.org/5wzf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wzf RCSB], [http://www.ebi.ac.uk/pdbsum/5wzf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wzf ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/VPC20_MYCTO VPC20_MYCTO]] Toxic component of a toxin-antitoxin (TA) module. An endoribonuclease that cleaves 23S rRNA in the sarcin-ricin loop (SRL). The SRL sequence is highly conserved and is implicated in GTP hydrolysis by EF-Tu and EF-G. Acts on purified ribosomes but not on isolated RNA. Its toxic effect is neutralized by coexpression with cognate antitoxin VapB20.[UniProtKB:P95004][HAMAP-Rule:MF_00265]
+[https://www.uniprot.org/uniprot/VPC20_MYCTO VPC20_MYCTO] Toxic component of a toxin-antitoxin (TA) module. An endoribonuclease that cleaves 23S rRNA in the sarcin-ricin loop (SRL). The SRL sequence is highly conserved and is implicated in GTP hydrolysis by EF-Tu and EF-G. Acts on purified ribosomes but not on isolated RNA. Its toxic effect is neutralized by coexpression with cognate antitoxin VapB20.[UniProtKB:P95004][HAMAP-Rule:MF_00265]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 19: / Line 18: @@
 </div>
 <div class="pdbe-citations 5wzf" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Endonuclease 3D structures|Endonuclease 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Deep, A]]
+[[Category: Large Structures]]
-[[Category: Thakur, K G]]
+[[Category: Mycobacterium tuberculosis H37Rv]]
-[[Category: Homodimer]]
+[[Category: Deep A]]
-[[Category: Hydrolase]]
+[[Category: Thakur KG]]
-[[Category: Pin-domain]]
-[[Category: Sarcin-ricin loop cleaving toxin]]
-[[Category: Toxin-antitoxin system]]
-[[Category: Vapc toxin]]

5wzf

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Current revision

Crystal structure of Mycobacterium tuberculosis VapC20 (Rv2549c), Sarcin-Ricin loop cleaving toxin

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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