This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


3u3w

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (13:47, 14 March 2024) (edit) (undo)
 
Line 3: Line 3:
<StructureSection load='3u3w' size='340' side='right'caption='[[3u3w]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
<StructureSection load='3u3w' size='340' side='right'caption='[[3u3w]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[3u3w]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_thuringiensis_bt407 Bacillus thuringiensis bt407]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3U3W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3U3W FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[3u3w]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_cereus Bacillus cereus] and [https://en.wikipedia.org/wiki/Bacillus_thuringiensis_Bt407 Bacillus thuringiensis Bt407]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3U3W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3U3W FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">plcR ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=527021 Bacillus thuringiensis Bt407])</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></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=3u3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3u3w OCA], [https://pdbe.org/3u3w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3u3w RCSB], [https://www.ebi.ac.uk/pdbsum/3u3w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3u3w ProSAT]</span></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=3u3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3u3w OCA], [https://pdbe.org/3u3w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3u3w RCSB], [https://www.ebi.ac.uk/pdbsum/3u3w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3u3w ProSAT]</span></td></tr>
</table>
</table>
-
<div style="background-color:#fffaf0;">
+
== Function ==
-
== Publication Abstract from PubMed ==
+
[https://www.uniprot.org/uniprot/Q45782_BACTU Q45782_BACTU]
-
The quorum-sensing regulator PlcR is the master regulator of most known virulence factors in Bacillus cereus. It is a helix-turn-helix (HTH)-type transcription factor activated upon binding of its cognate signaling peptide PapR on a tetratricopeptide repeat-type regulatory domain. The structural and functional properties of PlcR have defined a new family of sensor regulators, called the RNPP family (for Rap, NprR, PrgX, and PlcR), in Gram-positive bacteria. To fully understand the activation mechanism of PlcR, we took a closer look at the conformation changes induced upon binding of PapR and of its target DNA, known as PlcR-box. For that purpose we have determined the structures of the apoform of PlcR (Apo PlcR) and of the ternary complex of PlcR with PapR and the PlcR-box from the plcA promoter. Comparison of the apoform of PlcR with the previously published structure of the PlcR-PapR binary complex shows how a small conformational change induced in the C-terminal region of the tetratricopeptide repeat (TPR) domain upon peptide binding propagates via the linker helix to the N-terminal HTH DNA-binding domain. Further comparison with the PlcR-PapR-DNA ternary complex shows how the activation of the PlcR dimer allows the linker helix to undergo a drastic conformational change and subsequent proper positioning of the HTH domains in the major groove of the two half sites of the pseudopalindromic PlcR-box. Together with random mutagenesis experiments and interaction measurements using peptides from distinct pherogroups, this structural analysis allows us to propose a molecular mechanism for this functional switch.
+
-
 
+
-
Structural basis for the activation mechanism of the PlcR virulence regulator by the quorum-sensing signal peptide PapR.,Grenha R, Slamti L, Nicaise M, Refes Y, Lereclus D, Nessler S Proc Natl Acad Sci U S A. 2013 Jan 15;110(3):1047-52. doi:, 10.1073/pnas.1213770110. Epub 2012 Dec 31. PMID:23277548<ref>PMID:23277548</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
-
<div class="pdbe-citations 3u3w" style="background-color:#fffaf0;"></div>
+
==See Also==
==See Also==
*[[Transcriptional activator 3D structures|Transcriptional activator 3D structures]]
*[[Transcriptional activator 3D structures|Transcriptional activator 3D structures]]
-
== References ==
 
-
<references/>
 
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Bacillus thuringiensis bt407]]
+
[[Category: Bacillus cereus]]
 +
[[Category: Bacillus thuringiensis Bt407]]
[[Category: Large Structures]]
[[Category: Large Structures]]
-
[[Category: Bouillaut, L]]
+
[[Category: Bouillaut L]]
-
[[Category: Grenha, R]]
+
[[Category: Grenha R]]
-
[[Category: Lereclus, D]]
+
[[Category: Lereclus D]]
-
[[Category: Nessler, S]]
+
[[Category: Nessler S]]
-
[[Category: Slamti, L]]
+
[[Category: Slamti L]]
-
[[Category: Hth dna-binding domain]]
+
-
[[Category: Plcr-papr7-dna]]
+
-
[[Category: Pleiotropic regulator]]
+
-
[[Category: Quorum sensing]]
+
-
[[Category: Ternary complex]]
+
-
[[Category: Transcription activator-dna complex]]
+

Current revision

Crystal Structure of Bacillus thuringiensis PlcR in complex with the peptide PapR7 and DNA

PDB ID 3u3w

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3u3w"
Personal tools