8b2g: Difference between revisions

← Older edit Newer edit →

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 8b2g is ON HOLD  until Paper Publication
+==SH3-like domain from Penicillium virgatum muramidase==
+<StructureSection load='8b2g' size='340' side='right'caption='[[8b2g]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[8b2g]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Penicillium_virgatum Penicillium virgatum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8B2G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8B2G 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]] 1.5&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=8b2g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8b2g OCA], [https://pdbe.org/8b2g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8b2g RCSB], [https://www.ebi.ac.uk/pdbsum/8b2g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8b2g ProSAT]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Muramidases (also known as lysozymes) hydrolyse the peptidoglycan component of the bacterial cell wall and are found in many glycoside hydrolase (GH) families. Similar to other glycoside hydrolases, muramidases sometimes have noncatalytic domains that facilitate their interaction with the substrate. Here, the identification, characterization and X-ray structure of a novel fungal GH24 muramidase from Trichophaea saccata is first described, in which an SH3-like cell-wall-binding domain (CWBD) was identified by structure comparison in addition to its catalytic domain. Further, a complex between a triglycine peptide and the CWBD from T. saccata is presented that shows a possible anchor point of the peptidoglycan on the CWBD. A ;domain-walking' approach, searching for other sequences with a domain of unknown function appended to the CWBD, was then used to identify a group of fungal muramidases that also contain homologous SH3-like cell-wall-binding modules, the catalytic domains of which define a new GH family. The properties of some representative members of this family are described as well as X-ray structures of the independent catalytic and SH3-like domains of the Kionochaeta sp., Thermothielavioides terrestris and Penicillium virgatum enzymes. This work confirms the power of the module-walking approach, extends the library of known GH families and adds a new noncatalytic module to the muramidase arsenal.
-Authors: Moroz, O.V., Blagova, E., Lebedev, A.A., Skov, L.K., Pache, R.A., Schnorr, K.M., Kiemer, L., Nymand-Grarup, S., Ming, L., Ye, L., Klausen, M., Cohn, M.T., Schmidt, E.G.W., Davies, G.J., Wilson, K.S.
+Module walking using an SH3-like cell-wall-binding domain leads to a new GH184 family of muramidases.,Moroz OV, Blagova E, Lebedev AA, Skov LK, Pache RA, Schnorr KM, Kiemer L, Friis EP, Nymand-Grarup S, Ming L, Ye L, Klausen M, Cohn MT, Schmidt EGW, Davies GJ, Wilson KS Acta Crystallogr D Struct Biol. 2023 Aug 1. doi: 10.1107/S2059798323005004. PMID:37428847<ref>PMID:37428847</ref>
-Description: SH3-like domain from Penicillium virgatum muramidase
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Kiemer, L]]
+<div class="pdbe-citations 8b2g" style="background-color:#fffaf0;"></div>
-[[Category: Nymand-Grarup, S]]
+== References ==
-[[Category: Ming, L]]
+<references/>
-[[Category: Schnorr, K.M]]
+__TOC__
-[[Category: Lebedev, A.A]]
+</StructureSection>
-[[Category: Wilson, K.S]]
+[[Category: Large Structures]]
-[[Category: Ye, L]]
+[[Category: Penicillium virgatum]]
-[[Category: Davies, G.J]]
+[[Category: Blagova E]]
-[[Category: Klausen, M]]
+[[Category: Cohn MT]]
-[[Category: Skov, L.K]]
+[[Category: Davies GJ]]
-[[Category: Moroz, O.V]]
+[[Category: Kiemer L]]
-[[Category: Schmidt, E.G.W]]
+[[Category: Klausen M]]
-[[Category: Pache, R.A]]
+[[Category: Lebedev AA]]
-[[Category: Blagova, E]]
+[[Category: Ming L]]
-[[Category: Cohn, M.T]]
+[[Category: Moroz OV]]
+[[Category: Nymand-Grarup S]]
+[[Category: Pache RA]]
+[[Category: Schmidt EGW]]
+[[Category: Schnorr KM]]
+[[Category: Skov LK]]
+[[Category: Wilson KS]]
+[[Category: Ye L]]