9hp7: Difference between revisions

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~~'''Unreleased structure'''~~

~~The entry~~ 9hp7 is ~~ON HOLD~~

==Crystal structure of GH19 E228Q domain of D29-LysA in complex with (GlcNAc)4==

== Structural highlights ==

<table><tr><td colspan='2'>[[9hp7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_phage_D29 Mycobacterium phage D29]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9HP7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9HP7 FirstGlance]. <br>

</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.83Å</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>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=9hp7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9hp7 OCA], [https://pdbe.org/9hp7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9hp7 RCSB], [https://www.ebi.ac.uk/pdbsum/9hp7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9hp7 ProSAT]</span></td></tr>

</table>

== Publication Abstract from PubMed ==

Mycobacterial infections, including tuberculosis, remain a major global health challenge, causing millions of deaths annually. Their treatment is increasingly hindered by limited therapeutic options and rising antimicrobial resistance, highlighting the urgent need for alternative strategies. Mycobacteriophage LysA endolysins are complex multi-domain peptidoglycan hydrolases emerging as potential tools to treat mycobacterial infections. However, despite the therapeutic prospects of LysAs, our understanding of their mechanism of action remains limited. This study provides a comprehensive structural-functional analysis of the catalytic domains of D29LysA and DS6ALysA endolysins (D29N4/D29GH19 and DS6AGH19/DS6AAmi2B), characterised alone and in complex with PG analogues, using protein engineering, X-ray crystallography, small-angle X-ray scattering, and in silico tools. Our results reveal precise details of the substrate-binding site and the catalytic platforms at each domain, including information about substrate-binding mode and conformational changes associated with peptidoglycan recognition and hydrolysis. Moreover, these findings also suggest a coordinated mechanism of action of both catalytic domains in DS6ALysA lysin. These insights represent a significant advance in understanding the structural basis of mycobacterial cell-wall degradation by mycobacteriophage endolysins. Information that may aid in further exploring these endolysins as therapeutic antimicrobial tools in the future.

~~Authors~~:

Dissecting the molecular basis underlying mycobacterial cell-wall hydrolysis by the catalytic domains of D29LysA and DS6ALysA phage endolysins.,Ceballos-Zuniga F, Galvez-Larrosa L, Munoz IG, Infantes L, Fernandez-Carrillo J, Perez-Dorado I Int J Biol Macromol. 2025 Dec;334(Pt 1):148896. doi: , 10.1016/j.ijbiomac.2025.148896. Epub 2025 Nov 7. PMID:41207583<ref>PMID:41207583</ref>

~~Description~~:

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

[[Category: ~~Unreleased~~ Structures]]

</div>

== References ==

__TOC__

</StructureSection>

[[Category: Large Structures]]

[[Category: Mycobacterium phage D29]]

[[Category: Ceballos-Zuniga F]]

[[Category: Perez-Dorado I]]

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@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 9hp7 is ON HOLD
+==Crystal structure of GH19 E228Q domain of D29-LysA in complex with (GlcNAc)4==
+<StructureSection load='9hp7' size='340' side='right'caption='[[9hp7]], [[Resolution|resolution]] 1.83&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[9hp7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_phage_D29 Mycobacterium phage D29]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9HP7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9HP7 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.83&#8491;</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>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=9hp7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9hp7 OCA], [https://pdbe.org/9hp7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9hp7 RCSB], [https://www.ebi.ac.uk/pdbsum/9hp7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9hp7 ProSAT]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Mycobacterial infections, including tuberculosis, remain a major global health challenge, causing millions of deaths annually. Their treatment is increasingly hindered by limited therapeutic options and rising antimicrobial resistance, highlighting the urgent need for alternative strategies. Mycobacteriophage LysA endolysins are complex multi-domain peptidoglycan hydrolases emerging as potential tools to treat mycobacterial infections. However, despite the therapeutic prospects of LysAs, our understanding of their mechanism of action remains limited. This study provides a comprehensive structural-functional analysis of the catalytic domains of D29LysA and DS6ALysA endolysins (D29N4/D29GH19 and DS6AGH19/DS6AAmi2B), characterised alone and in complex with PG analogues, using protein engineering, X-ray crystallography, small-angle X-ray scattering, and in silico tools. Our results reveal precise details of the substrate-binding site and the catalytic platforms at each domain, including information about substrate-binding mode and conformational changes associated with peptidoglycan recognition and hydrolysis. Moreover, these findings also suggest a coordinated mechanism of action of both catalytic domains in DS6ALysA lysin. These insights represent a significant advance in understanding the structural basis of mycobacterial cell-wall degradation by mycobacteriophage endolysins. Information that may aid in further exploring these endolysins as therapeutic antimicrobial tools in the future.
-Authors:
+Dissecting the molecular basis underlying mycobacterial cell-wall hydrolysis by the catalytic domains of D29LysA and DS6ALysA phage endolysins.,Ceballos-Zuniga F, Galvez-Larrosa L, Munoz IG, Infantes L, Fernandez-Carrillo J, Perez-Dorado I Int J Biol Macromol. 2025 Dec;334(Pt 1):148896. doi: , 10.1016/j.ijbiomac.2025.148896. Epub 2025 Nov 7. PMID:41207583<ref>PMID:41207583</ref>
-Description:
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
+<div class="pdbe-citations 9hp7" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Mycobacterium phage D29]]
+[[Category: Ceballos-Zuniga F]]
+[[Category: Perez-Dorado I]]