6ikk

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure of YfiB(L43P) in complex with YfiR

Structural highlights

6ikk is a 4 chain structure with sequence from Pseudomonas aeruginosa PAO1. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.19Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

YFIB_PSEAE Activates the diguanylate cyclase TpbB/YfiN by sequestering YfiR at the outer membrane, which counteracts the YfiR-mediated repression of TpbB/YfiN at the inner membrane and leads to increased c-di-GMP production (PubMed:20300602, PubMed:22719254). May act as a sensor of envelope stress (PubMed:20300602, PubMed:22719254).^[1] ^[2] Part of the YfiB-TpbB-YfiR (or yfiBNR) system, encoding a tripartite signaling module that modulates intracellular c-di-GMP levels (PubMed:20300602, PubMed:22719254). The system is a key regulator of the small colony variant (SCV) phenotype, and plays an important role in biofilm formation and in vivo persistence (PubMed:20300602). The c-di-GMP produced by TpbB/YfiN stimulates the production of the Pel and Psl exopolysaccharides, which promotes surface attachment, generates an SCV phenotype and confers resistance against phagocytosis (PubMed:20300602).^[3] ^[4]

Publication Abstract from PubMed

Bacterial cyclic-di-GMP (c-di-GMP) is an important messenger molecule that influences diverse cellular processes including motility, virulence and cytotoxicity systems, polysaccharide synthesis and biofilm formation. The YfiBNR tripartite signalling system in P. aeruginosa modulates the cellular c-di-GMP levels in response to signals received from the periplasm. In this study, we analyse the structures of activating mutants of the outer membrane protein YfiB that give rise to increased surface attachment and biofilm formation. The F48S and W55L mutants of YfiB(27-168) crystallize in the same dimeric arrangement as our previously reported YfiB structures that preclude complex formation with YfiR. The L43P mutant of YfiB(27-168) is monomeric and forms a stable complex with YfiR. The YfiB(L43P)-YfiR crystal structure reveals a dramatic rearrangement of the N-terminal fragment, which is implicated in increased YfiB activation and membrane attachment, upon YfiR binding. Comparison with our previous complex structure between YfiB(59-168) and YfiR reveals extensive interactions between the N-terminal fragment of YfiB (residues 35-55) and YfiR.

Structural analysis of activating mutants of YfiB from Pseudomonas aeruginosa PAO1.,Li S, Li T, Teng X, Lou X, Xu Y, Zhang Q, Bartlam M Biochem Biophys Res Commun. 2018 Dec 2;506(4):997-1003. doi:, 10.1016/j.bbrc.2018.10.190. Epub 2018 Nov 4. PMID:30404734^[5]

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

References

↑ Malone JG, Jaeger T, Spangler C, Ritz D, Spang A, Arrieumerlou C, Kaever V, Landmann R, Jenal U. YfiBNR mediates cyclic di-GMP dependent small colony variant formation and persistence in Pseudomonas aeruginosa. PLoS Pathog. 2010 Mar 12;6(3):e1000804. PMID:20300602 doi:10.1371/journal.ppat.1000804
↑ Malone JG, Jaeger T, Manfredi P, Dötsch A, Blanka A, Bos R, Cornelis GR, Häussler S, Jenal U. The YfiBNR signal transduction mechanism reveals novel targets for the evolution of persistent Pseudomonas aeruginosa in cystic fibrosis airways. PLoS Pathog. 2012;8(6):e1002760. PMID:22719254 doi:10.1371/journal.ppat.1002760
↑ Malone JG, Jaeger T, Spangler C, Ritz D, Spang A, Arrieumerlou C, Kaever V, Landmann R, Jenal U. YfiBNR mediates cyclic di-GMP dependent small colony variant formation and persistence in Pseudomonas aeruginosa. PLoS Pathog. 2010 Mar 12;6(3):e1000804. PMID:20300602 doi:10.1371/journal.ppat.1000804
↑ Malone JG, Jaeger T, Manfredi P, Dötsch A, Blanka A, Bos R, Cornelis GR, Häussler S, Jenal U. The YfiBNR signal transduction mechanism reveals novel targets for the evolution of persistent Pseudomonas aeruginosa in cystic fibrosis airways. PLoS Pathog. 2012;8(6):e1002760. PMID:22719254 doi:10.1371/journal.ppat.1002760
↑ Li S, Li T, Teng X, Lou X, Xu Y, Zhang Q, Bartlam M. Structural analysis of activating mutants of YfiB from Pseudomonas aeruginosa PAO1. Biochem Biophys Res Commun. 2018 Dec 2;506(4):997-1003. doi:, 10.1016/j.bbrc.2018.10.190. Epub 2018 Nov 4. PMID:30404734 doi:http://dx.doi.org/10.1016/j.bbrc.2018.10.190

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/6ikk"

Categories: Large Structures | Pseudomonas aeruginosa PAO1 | Bartlam M | Li S | Zhang Q

@@ Line 3: / Line 3: @@
 <StructureSection load='6ikk' size='340' side='right'caption='[[6ikk]], [[Resolution|resolution]] 2.19&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6ikk]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IKK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IKK FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6ikk]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_aeruginosa_PAO1 Pseudomonas aeruginosa PAO1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IKK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6IKK FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.19&#8491;</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=6ikk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ikk OCA], [http://pdbe.org/6ikk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ikk RCSB], [http://www.ebi.ac.uk/pdbsum/6ikk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ikk ProSAT]</span></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=6ikk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ikk OCA], [https://pdbe.org/6ikk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ikk RCSB], [https://www.ebi.ac.uk/pdbsum/6ikk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ikk ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/YFIB_PSEAE YFIB_PSEAE] Activates the diguanylate cyclase TpbB/YfiN by sequestering YfiR at the outer membrane, which counteracts the YfiR-mediated repression of TpbB/YfiN at the inner membrane and leads to increased c-di-GMP production (PubMed:20300602, PubMed:22719254). May act as a sensor of envelope stress (PubMed:20300602, PubMed:22719254).<ref>PMID:20300602</ref> <ref>PMID:22719254</ref>   Part of the YfiB-TpbB-YfiR (or yfiBNR) system, encoding a tripartite signaling module that modulates intracellular c-di-GMP levels (PubMed:20300602, PubMed:22719254). The system is a key regulator of the small colony variant (SCV) phenotype, and plays an important role in biofilm formation and in vivo persistence (PubMed:20300602). The c-di-GMP produced by TpbB/YfiN stimulates the production of the Pel and Psl exopolysaccharides, which promotes surface attachment, generates an SCV phenotype and confers resistance against phagocytosis (PubMed:20300602).<ref>PMID:20300602</ref> <ref>PMID:22719254</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 24: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Bartlam, M]]
+[[Category: Pseudomonas aeruginosa PAO1]]
-[[Category: Li, S]]
+[[Category: Bartlam M]]
-[[Category: Zhang, Q]]
+[[Category: Li S]]
-[[Category: Complex]]
+[[Category: Zhang Q]]
-[[Category: Peptidoglycan binding]]
-[[Category: Signaling protein]]
-[[Category: Signalling system]]

6ikk

From Proteopedia

Current revision

Crystal structure of YfiB(L43P) in complex with YfiR

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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