3h87

From Proteopedia

(Difference between revisions)

Revision as of 11:08, 5 August 2016

Rv0301 Rv0300 Toxin Antitoxin Complex from Mycobacterium tuberculosis

Structural highlights

3h87 is a 4 chain structure with sequence from Myctu. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, , ,
Gene:	MT0314, Rv0301 (MYCTU), Rv0300 (MYCTU)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT, TOPSAN

Function

[VAPC2_MYCTO] Toxic component of a toxin-antitoxin (TA) module. Acts as an RNase. All its toxic effects are neutralized by coexpression with cognate antitoxin VapB2 (By similarity). [VAPB2_MYCTU] Antitoxin component of a type II toxin-antitoxin (TA) module. Upon expression in M.smegmatis neutralizes the effect of cognate toxin VapC2. The C-terminal helix of the antitoxin may obstruct the toxin's RNA-binding groove, blocking access to the active sites. Additionally, the C-terminal arginine of the antitoxin may remove Mg(2+) ions from the toxin active sites.^[1] ^[2] ^[3]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

VapBC pairs account for 45 out of 88 identified toxin-antitoxin (TA) pairs in the Mycobacterium tuberculosis (Mtb) H37Rv genome. A working model suggests that under times of stress, antitoxin molecules are degraded, releasing the toxins to slow the metabolism of the cell, which in the case of VapC toxins is via their RNase activity. Otherwise the TA pairs remain bound to their promoters, autoinhibiting transcription. The crystal structure of Rv0301-Rv0300, an Mtb VapBC TA complex determined at 1.49 A resolution, suggests a mechanism for these three functions: RNase activity, its inhibition by antitoxin, and its ability to bind promoter DNA. The Rv0301 toxin consists of a core of five parallel beta strands flanked by alpha helices. Three proximal aspartates coordinate a Mg(2+) ion forming the putative RNase active site. The Rv0300 antitoxin monomer is extended in structure, consisting of an N-terminal beta strand followed by four helices. The last two helices wrap around the toxin and terminate near the putative RNase active site, but with different conformations. In one conformation, the C-terminal arginine interferes with Mg(2+) ion coordination, suggesting a mechanism by which the antitoxin can inhibit toxin activity. At the N-terminus of the antitoxin, two pairs of Ribbon-Helix-Helix (RHH) motifs are related by crystallographic twofold symmetry. The resulting hetero-octameric complex is similar to the FitAB system, but the two RHH motifs are about 30 A closer together in the Rv0301-Rv0300 complex, suggesting either a different span of the DNA recognition sequence or a conformational change.

The crystal structure of the Rv0301-Rv0300 VapBC-3 toxin-antitoxin complex from M. tuberculosis reveals a Mg(2+) ion in the active site and a putative RNA-binding site.,Min AB, Miallau L, Sawaya MR, Habel J, Cascio D, Eisenberg D Protein Sci. 2012 Nov;21(11):1754-67. doi: 10.1002/pro.2161. PMID:23011806^[4]

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

References

↑ Ramage HR, Connolly LE, Cox JS. Comprehensive functional analysis of Mycobacterium tuberculosis toxin-antitoxin systems: implications for pathogenesis, stress responses, and evolution. PLoS Genet. 2009 Dec;5(12):e1000767. doi: 10.1371/journal.pgen.1000767. Epub 2009, Dec 11. PMID:20011113 doi:http://dx.doi.org/10.1371/journal.pgen.1000767
↑ Min AB, Miallau L, Sawaya MR, Habel J, Cascio D, Eisenberg D. The crystal structure of the Rv0301-Rv0300 VapBC-3 toxin-antitoxin complex from M. tuberculosis reveals a Mg(2+) ion in the active site and a putative RNA-binding site. Protein Sci. 2012 Nov;21(11):1754-67. doi: 10.1002/pro.2161. PMID:23011806 doi:http://dx.doi.org/10.1002/pro.2161
↑ Pandey DP, Gerdes K. Toxin-antitoxin loci are highly abundant in free-living but lost from host-associated prokaryotes. Nucleic Acids Res. 2005 Feb 17;33(3):966-76. Print 2005. PMID:15718296 doi:http://dx.doi.org/10.1093/nar/gki201
↑ Min AB, Miallau L, Sawaya MR, Habel J, Cascio D, Eisenberg D. The crystal structure of the Rv0301-Rv0300 VapBC-3 toxin-antitoxin complex from M. tuberculosis reveals a Mg(2+) ion in the active site and a putative RNA-binding site. Protein Sci. 2012 Nov;21(11):1754-67. doi: 10.1002/pro.2161. PMID:23011806 doi:http://dx.doi.org/10.1002/pro.2161

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3h87"

@@ Line 1: / Line 1: @@
 ==Rv0301 Rv0300 Toxin Antitoxin Complex from Mycobacterium tuberculosis==
 <StructureSection load='3h87' size='340' side='right' caption='[[3h87]], [[Resolution|resolution]] 1.49&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3h87]] is a 4 chain structure with sequence from [http://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=3H87 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3H87 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3h87]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Myctu Myctu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H87 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3H87 FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">MT0314, Rv0301 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83332 Mycobacterium tuberculosis H37Rv]), Rv0300 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83332 Mycobacterium tuberculosis H37Rv])</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">MT0314, Rv0301 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83332 MYCTU]), Rv0300 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83332 MYCTU])</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=3h87 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h87 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3h87 RCSB], [http://www.ebi.ac.uk/pdbsum/3h87 PDBsum], [http://www.topsan.org/Proteins/ISFI/3h87 TOPSAN]</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=3h87 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h87 OCA], [http://pdbe.org/3h87 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3h87 RCSB], [http://www.ebi.ac.uk/pdbsum/3h87 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3h87 ProSAT], [http://www.topsan.org/Proteins/ISFI/3h87 TOPSAN]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/O07228_MYCTU O07228_MYCTU]] Toxic component of a toxin-antitoxin (TA) module. Acts as an RNase. All its toxic effects are neutralized by coexpression with cognate antitoxin VapB2 (By similarity). [[http://www.uniprot.org/uniprot/O07227_MYCTU O07227_MYCTU]] Antitoxin component of a toxin-antitoxin (TA) module. Upon expression in M.smegmatis neutralizes the effect of cognate toxin VapC2. The C-terminal helix of the antitoxin may obstruct the toxin's RNA-binding groove, blocking access to the active sites. Additionally, the C-terminal arginine of the antitoxin may remove Mg(2+) ions from the toxin active sites.<ref>PMID:15718296</ref> <ref>PMID:20011113</ref>
+[[http://www.uniprot.org/uniprot/VAPC2_MYCTO VAPC2_MYCTO]] Toxic component of a toxin-antitoxin (TA) module. Acts as an RNase. All its toxic effects are neutralized by coexpression with cognate antitoxin VapB2 (By similarity). [[http://www.uniprot.org/uniprot/VAPB2_MYCTU VAPB2_MYCTU]] Antitoxin component of a type II toxin-antitoxin (TA) module. Upon expression in M.smegmatis neutralizes the effect of cognate toxin VapC2. The C-terminal helix of the antitoxin may obstruct the toxin's RNA-binding groove, blocking access to the active sites. Additionally, the C-terminal arginine of the antitoxin may remove Mg(2+) ions from the toxin active sites.<ref>PMID:20011113</ref> <ref>PMID:23011806</ref> <ref>PMID:15718296</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 17: / Line 18: @@
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
-</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
+</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3h87 ConSurf].
 <div style="clear:both"></div>
 <div style="background-color:#fffaf0;">
@@ Line 27: / Line 28: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 3h87" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Mycobacterium tuberculosis h37rv]]
+[[Category: Myctu]]
 [[Category: Cascio, D]]
 [[Category: Eisenberg, D]]

3h87

From Proteopedia

Revision as of 11:08, 5 August 2016

Rv0301 Rv0300 Toxin Antitoxin Complex from Mycobacterium tuberculosis

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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