3m8e: Difference between revisions

Latest revision as of 08:47, 7 February 2024

Protein structure of Type III plasmid segregation TubR

Structural highlights

3m8e is a 2 chain structure with sequence from Bacillus thuringiensis serovar israelensis. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

TUBR_BACTI A DNA-binding protein that is part of the type III plasmid partition system used to ensure correct segregation of the pBtoxis plasmid. Cooperatively binds to the centromere-like site (tubC), which may seed filament formation by the TubZ polymerizing GTPase, stabilizing TubZ filaments. TubR-tubC complexes track the depolymerizing minus end of the filament, probably pulling plasmid within the cell (PubMed:20534443, PubMed:23010931, PubMed:25825718). Required for plasmid replication (PubMed:16936050, PubMed:17873046). Negatively regulates levels of TubZ; its effect on RNA expression has not been shown (Probable). Specifically binds iterons, 12-bp imperfect direct repeats that function as a plasmid origin of replication (PubMed:17873046, PubMed:23010931, PubMed:25825718). Four TubR dimers bind to tubC, forming an extended bent DNA-protein filament with protein wrapping helically around the outside of the DNA (PubMed:20534443, PubMed:23010931).^[1] ^[2] ^[3] ^[4] ^[5] ^[6]

References

↑ Tang M, Bideshi DK, Park HW, Federici BA. Minireplicon from pBtoxis of Bacillus thuringiensis subsp. israelensis. Appl Environ Microbiol. 2006 Nov;72(11):6948-54. PMID:16936050 doi:10.1128/AEM.00976-06
↑ Tang M, Bideshi DK, Park HW, Federici BA. Iteron-binding ORF157 and FtsZ-like ORF156 proteins encoded by pBtoxis play a role in its replication in Bacillus thuringiensis subsp. israelensis. J Bacteriol. 2007 Nov;189(22):8053-8. PMID:17873046 doi:10.1128/JB.00908-07
↑ Ni L, Xu W, Kumaraswami M, Schumacher MA. Plasmid protein TubR uses a distinct mode of HTH-DNA binding and recruits the prokaryotic tubulin homolog TubZ to effect DNA partition. Proc Natl Acad Sci U S A. 2010 Jun 4. PMID:20534443
↑ Aylett CH, Lowe J. Superstructure of the centromeric complex of TubZRC plasmid partitioning systems. Proc Natl Acad Sci U S A. 2012 Oct 9;109(41):16522-7. doi:, 10.1073/pnas.1210899109. Epub 2012 Sep 25. PMID:23010931 doi:https://dx.doi.org/10.1073/pnas.1210899109
↑ Fink G, Löwe J. Reconstitution of a prokaryotic minus end-tracking system using TubRC centromeric complexes and tubulin-like protein TubZ filaments. Proc Natl Acad Sci U S A. 2015 Apr 14;112(15):E1845-50. PMID:25825718 doi:10.1073/pnas.1423746112
↑ Larsen RA, Cusumano C, Fujioka A, Lim-Fong G, Patterson P, Pogliano J. Treadmilling of a prokaryotic tubulin-like protein, TubZ, required for plasmid stability in Bacillus thuringiensis. Genes Dev. 2007 Jun 1;21(11):1340-52. PMID:17510284 doi:10.1101/gad.1546107

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Tang M, Bideshi DK, Park HW, Federici BA. Minireplicon from pBtoxis of Bacillus thuringiensis subsp. israelensis. Appl Environ Microbiol. 2006 Nov;72(11):6948-54. PMID:16936050 doi:10.1128/AEM.00976-06

[2] Tang M, Bideshi DK, Park HW, Federici BA. Iteron-binding ORF157 and FtsZ-like ORF156 proteins encoded by pBtoxis play a role in its replication in Bacillus thuringiensis subsp. israelensis. J Bacteriol. 2007 Nov;189(22):8053-8. PMID:17873046 doi:10.1128/JB.00908-07

[3] Ni L, Xu W, Kumaraswami M, Schumacher MA. Plasmid protein TubR uses a distinct mode of HTH-DNA binding and recruits the prokaryotic tubulin homolog TubZ to effect DNA partition. Proc Natl Acad Sci U S A. 2010 Jun 4. PMID:20534443

[4] Aylett CH, Lowe J. Superstructure of the centromeric complex of TubZRC plasmid partitioning systems. Proc Natl Acad Sci U S A. 2012 Oct 9;109(41):16522-7. doi:, 10.1073/pnas.1210899109. Epub 2012 Sep 25. PMID:23010931 doi:https://dx.doi.org/10.1073/pnas.1210899109

[5] Fink G, Löwe J. Reconstitution of a prokaryotic minus end-tracking system using TubRC centromeric complexes and tubulin-like protein TubZ filaments. Proc Natl Acad Sci U S A. 2015 Apr 14;112(15):E1845-50. PMID:25825718 doi:10.1073/pnas.1423746112

[6] Larsen RA, Cusumano C, Fujioka A, Lim-Fong G, Patterson P, Pogliano J. Treadmilling of a prokaryotic tubulin-like protein, TubZ, required for plasmid stability in Bacillus thuringiensis. Genes Dev. 2007 Jun 1;21(11):1340-52. PMID:17510284 doi:10.1101/gad.1546107

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[5]

[6]

@@ Line 1: / Line 1: @@
-{{Seed}}
-[[Image:3m8e.png|left|200px]]
-<!--
+==Protein structure of Type III plasmid segregation TubR==
-The line below this paragraph, containing "STRUCTURE_3m8e", creates the "Structure Box" on the page.
+<StructureSection load='3m8e' size='340' side='right'caption='[[3m8e]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[3m8e]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_thuringiensis_serovar_israelensis Bacillus thuringiensis serovar israelensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3M8E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3M8E FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</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&#8491;</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=3m8e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3m8e OCA], [https://pdbe.org/3m8e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3m8e RCSB], [https://www.ebi.ac.uk/pdbsum/3m8e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3m8e ProSAT]</span></td></tr>
-{{STRUCTURE_3m8e|  PDB=3m8e  |  SCENE=  }}
+</table>
+== Function ==
-===Protein structure of Type III plasmid segregation TubR===
+[https://www.uniprot.org/uniprot/TUBR_BACTI TUBR_BACTI] A DNA-binding protein that is part of the type III plasmid partition system used to ensure correct segregation of the pBtoxis plasmid. Cooperatively binds to the centromere-like site (tubC), which may seed filament formation by the TubZ polymerizing GTPase, stabilizing TubZ filaments. TubR-tubC complexes track the depolymerizing minus end of the filament, probably pulling plasmid within the cell (PubMed:20534443, PubMed:23010931, PubMed:25825718). Required for plasmid replication (PubMed:16936050, PubMed:17873046). Negatively regulates levels of TubZ; its effect on RNA expression has not been shown (Probable). Specifically binds iterons, 12-bp imperfect direct repeats that function as a plasmid origin of replication (PubMed:17873046, PubMed:23010931, PubMed:25825718). Four TubR dimers bind to tubC, forming an extended bent DNA-protein filament with protein wrapping helically around the outside of the DNA (PubMed:20534443, PubMed:23010931).<ref>PMID:16936050</ref> <ref>PMID:17873046</ref> <ref>PMID:20534443</ref> <ref>PMID:23010931</ref> <ref>PMID:25825718</ref> <ref>PMID:17510284</ref>
+== References ==
+<references/>
-<!--
+__TOC__
-The line below this paragraph, {{ABSTRACT_PUBMED_20534443}}, adds the Publication Abstract to the page
+</StructureSection>
-(as it appears on PubMed at http://www.pubmed.gov), where 20534443 is the PubMed ID number.
+[[Category: Bacillus thuringiensis serovar israelensis]]
--->
+[[Category: Large Structures]]
-{{ABSTRACT_PUBMED_20534443}}
+[[Category: Ni L]]
+[[Category: Schumacher MA]]
-==About this Structure==
-M8E is a 2 chains structure with sequences from [http://en.wikipedia.org/wiki/Bacillus_thuringiensis Bacillus thuringiensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3M8E OCA].
-==Reference==
-<ref group="xtra">PMID:20534443</ref><references group="xtra"/>
-[[Category: Bacillus thuringiensis]]
-[[Category: Ni, L.]]
-[[Category: Schumacher, M A.]]
-[[Category: Arsr family]]
-[[Category: Dna binding protein]]
-[[Category: Winged helix-turn-helix]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 21 09:48:42 2010''

3m8e: Difference between revisions

Latest revision as of 08:47, 7 February 2024

Protein structure of Type III plasmid segregation TubR

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