6ndp

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure of the dark-adapted full-length bacteriophytochrome XccBphP mutant L193Q from Xanthomonas campestris

Structural highlights

6ndp is a 2 chain structure with sequence from Xanthomonas campestris pv. campestris str. 8004. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 3.89Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

BPHY_XANC8 Photoreceptor which exists in two forms that are reversibly interconvertible by light: far-red light (733 nm) converts protein to the red-absorbing (Pr) form, while red light (630 nm) partly converts the protein to the far-red-absorbing (Pfr) form (PubMed:27107635). Regulates virulence of X.campestris pv. campestris on its host plants, perhaps by fine-tuning expression to ambient light levels and/or spatial cues (PubMed:27621284). The Pr form may sense light and partially inhibit virulence; in the dark (Pfr form) biofilm and xanathan production rise and bacteria are more virulent (PubMed:27621284). Strains overexpressing this protein have significantly decreased amounts of extracellular beta-1,4-endoglucanase, produce less xanthin and have decreased transcription of genes involved in virulence such as endoglucanases, type 2 secretion systems, xanthan production and flagellar-dependent motility (PubMed:27621284).^[1] ^[2] ^[3]

Publication Abstract from PubMed

Red/far-red light-sensing bacteriophytochrome photoreceptor (BphP) pathways play key roles in bacterial physiology and ecology. These bilin-binding proteins photoswitch between two states, Pr (red absorbing) and Pfr (far-red absorbing). The isomerization of the chromophore and the downstream structural changes result in the light signal transduction. The agricultural pathogen Xanthomonas campestris pv. campestris (Xcc) code for a single bathy-like type BphP (XccBphP), previously shown to negatively regulate several light-mediated biological processes involved in virulence. Here, we generated three different full-length variants with single amino acid changes within its GAF domain that affect the XccBphP photocycle favouring its Pr state: L193Q, L193N and D199A. While D199A recombinant protein locks XccBphP in a Pr-like state, L193Q and L193N exhibit a significant enrichment of the Pr form in thermal equilibrium. The X-ray crystal structures of the three variants were solved, resembling the wild-type protein in the Pr state. Finally, we studied the effects of altering the XccBphP photocycle on the exopolysaccharide xanthan production and stomatal aperture assays as readouts of its bacterial signalling pathway. Null-mutant complementation assays show that the photoactive Pr-favoured XccBphP variants L193Q and L193N tend to negatively regulate xanthan production in vivo. In addition, our results indicate that strains expressing these variants also promote stomatal apertures in challenged plant epidermal peels, compared to wild-type Xcc. The findings presented in this work provide new evidence on the Pr state of XccBphP as a negative regulator of the virulence-associated mechanisms by light in Xcc.

Pr-favoured variants of the bacteriophytochrome from the plant pathogen Xanthomonas campestris hint on light regulation of virulence-associated mechanisms.,Conforte V, Otero LH, Toum L, Sirigu S, Antelo GT, Rinaldi J, Foscaldi S, Klinke S, Chavas LMG, Vojnov AA, Goldbaum FA, Malamud F, Bonomi HR FEBS J. 2021 Apr 17. doi: 10.1111/febs.15883. PMID:33864705^[4]

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

References

↑ Otero LH, Klinke S, Rinaldi J, Velazquez-Escobar F, Mroginski MA, Fernandez Lopez M, Malamud F, Vojnov AA, Hildebrandt P, Goldbaum FA, Bonomi HR. Structure of the Full-Length Bacteriophytochrome from the Plant Pathogen Xanthomonas campestris Provides Clues to its Long-Range Signaling Mechanism. J Mol Biol. 2016 Apr 20. pii: S0022-2836(16)30071-7. doi:, 10.1016/j.jmb.2016.04.012. PMID:27107635 doi:http://dx.doi.org/10.1016/j.jmb.2016.04.012
↑ Bonomi HR, Toum L, Sycz G, Sieira R, Toscani AM, Gudesblat GE, Leskow FC, Goldbaum FA, Vojnov AA, Malamud F. Xanthomonas campestris attenuates virulence by sensing light through a bacteriophytochrome photoreceptor. EMBO Rep. 2016 Nov;17(11):1565-1577. doi: 10.15252/embr.201541691. Epub 2016 Sep , 12. PMID:27621284 doi:http://dx.doi.org/10.15252/embr.201541691
↑ Bonomi HR, Toum L, Sycz G, Sieira R, Toscani AM, Gudesblat GE, Leskow FC, Goldbaum FA, Vojnov AA, Malamud F. Xanthomonas campestris attenuates virulence by sensing light through a bacteriophytochrome photoreceptor. EMBO Rep. 2016 Nov;17(11):1565-1577. doi: 10.15252/embr.201541691. Epub 2016 Sep , 12. PMID:27621284 doi:http://dx.doi.org/10.15252/embr.201541691
↑ Conforte V, Otero LH, Toum L, Sirigu S, Antelo GT, Rinaldi J, Foscaldi S, Klinke S, Chavas LMG, Vojnov AA, Goldbaum FA, Malamud F, Bonomi HR. Pr-favoured variants of the bacteriophytochrome from the plant pathogen Xanthomonas campestris hint on light regulation of virulence-associated mechanisms. FEBS J. 2021 Apr 17. doi: 10.1111/febs.15883. PMID:33864705 doi:http://dx.doi.org/10.1111/febs.15883

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/6ndp"

@@ Line 3: / Line 3: @@
 <StructureSection load='6ndp' size='340' side='right'caption='[[6ndp]], [[Resolution|resolution]] 3.89&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6ndp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Xanc8 Xanc8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NDP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6NDP FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6ndp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Xanthomonas_campestris_pv._campestris_str._8004 Xanthomonas campestris pv. campestris str. 8004]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NDP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6NDP FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BLA:BILIVERDINE+IX+ALPHA'>BLA</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]] 3.89&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">bphP, XC_4241 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=314565 XANC8])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BLA:BILIVERDINE+IX+ALPHA'>BLA</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=6ndp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ndp OCA], [https://pdbe.org/6ndp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ndp RCSB], [https://www.ebi.ac.uk/pdbsum/6ndp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ndp ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/BPHY_XANC8 BPHY_XANC8]] Photoreceptor which exists in two forms that are reversibly interconvertible by light: far-red light (733 nm) converts protein to the red-absorbing (Pr) form, while red light (630 nm) partly converts the protein to the far-red-absorbing (Pfr) form (PubMed:27107635). Regulates virulence of X.campestris pv. campestris on its host plants, perhaps by fine-tuning expression to ambient light levels and/or spatial cues (PubMed:27621284). The Pr form may sense light and partially inhibit virulence; in the dark (Pfr form) biofilm and xanathan production rise and bacteria are more virulent (PubMed:27621284). Strains overexpressing this protein have significantly decreased amounts of extracellular beta-1,4-endoglucanase, produce less xanthin and have decreased transcription of genes involved in virulence such as endoglucanases, type 2 secretion systems, xanthan production and flagellar-dependent motility (PubMed:27621284).<ref>PMID:27107635</ref> <ref>PMID:27621284</ref> <ref>PMID:27621284</ref>
+[https://www.uniprot.org/uniprot/BPHY_XANC8 BPHY_XANC8] Photoreceptor which exists in two forms that are reversibly interconvertible by light: far-red light (733 nm) converts protein to the red-absorbing (Pr) form, while red light (630 nm) partly converts the protein to the far-red-absorbing (Pfr) form (PubMed:27107635). Regulates virulence of X.campestris pv. campestris on its host plants, perhaps by fine-tuning expression to ambient light levels and/or spatial cues (PubMed:27621284). The Pr form may sense light and partially inhibit virulence; in the dark (Pfr form) biofilm and xanathan production rise and bacteria are more virulent (PubMed:27621284). Strains overexpressing this protein have significantly decreased amounts of extracellular beta-1,4-endoglucanase, produce less xanthin and have decreased transcription of genes involved in virulence such as endoglucanases, type 2 secretion systems, xanthan production and flagellar-dependent motility (PubMed:27621284).<ref>PMID:27107635</ref> <ref>PMID:27621284</ref> <ref>PMID:27621284</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 24: / Line 24: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Xanc8]]
+[[Category: Xanthomonas campestris pv. campestris str. 8004]]
-[[Category: Bonomi, H R]]
+[[Category: Bonomi HR]]
-[[Category: Chavas, L]]
+[[Category: Chavas L]]
-[[Category: Conforte, V]]
+[[Category: Conforte V]]
-[[Category: Goldbaum, F A]]
+[[Category: Goldbaum FA]]
-[[Category: Klinke, S]]
+[[Category: Klinke S]]
-[[Category: Malamud, F]]
+[[Category: Malamud F]]
-[[Category: Otero, L H]]
+[[Category: Otero LH]]
-[[Category: Rinaldi, J]]
+[[Category: Rinaldi J]]
-[[Category: Sirigu, S]]
+[[Category: Sirigu S]]
-[[Category: Bacterial protein]]
-[[Category: Photoreceptor]]
-[[Category: Photosensor]]
-[[Category: Phytochrome]]
-[[Category: Phytopathogen]]
-[[Category: Red/far-red light]]
-[[Category: Signal transduction]]
-[[Category: Signaling protein]]

6ndp

From Proteopedia

Current revision

Crystal structure of the dark-adapted full-length bacteriophytochrome XccBphP mutant L193Q from Xanthomonas campestris

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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