8wzr: Difference between revisions

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-'''Unreleased structure'''
-The entry 8wzr is ON HOLD  until Paper Publication
+==SFX structure of an Mn-carbonyl complex immobilized in hen egg white lysozyme microcrystals, 100 ns after photoexcitation at RT.==
+<StructureSection load='8wzr' size='340' side='right'caption='[[8wzr]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[8wzr]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8WZR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8WZR 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]] 1.6&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=XTX:tris($l^{3}-oxidanylidynemethyl)manganese'>XTX</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=8wzr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8wzr OCA], [https://pdbe.org/8wzr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8wzr RCSB], [https://www.ebi.ac.uk/pdbsum/8wzr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8wzr ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/LYSC_CHICK LYSC_CHICK] Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents. Has bacteriolytic activity against M.luteus.<ref>PMID:22044478</ref>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Determining short-lived intermediate structures in chemical reactions is challenging. Although ultrafast spectroscopic methods can detect the formation of transient intermediates, real-space structures cannot be determined directly from such studies. Time-resolved serial femtosecond crystallography (TR-SFX) has recently proven to be a powerful method for capturing molecular changes in proteins on femtosecond timescales. However, the methodology has been mostly applied to natural proteins/enzymes and limited to reactions promoted by synthetic molecules due to structure determination challenges. This work demonstrates the applicability of TR-SFX for investigations of chemical reaction mechanisms of synthetic metal complexes. We fix a light-induced CO-releasing Mn(CO)(3) reaction center in porous hen egg white lysozyme (HEWL) microcrystals. By controlling light exposure and time, we capture the real-time formation of Mn-carbonyl intermediates during the CO release reaction. The asymmetric protein environment is found to influence the order of CO release. The experimentally-observed reaction path agrees with quantum mechanical calculations. Therefore, our demonstration offers a new approach to visualize atomic-level reactions of small molecules using TR-SFX with real-space structure determination. This advance holds the potential to facilitate design of artificial metalloenzymes with precise mechanisms, empowering design, control and development of innovative reactions.
-Authors: Maity, B., Shoji, M., Luo, F., Nakane, T., Abe, S., Owada, S., Kang, J., Tono, K., Tanaka, R., Thuc, T.T., Kojima, M., Hishikawa, Y., Tanaka, J., Tian, J., Noya, H., Nakasuji, Y., Asanuma, A., Yao, X., Iwata, S., Shigeta, Y., Nango, E., Ueno, T.
+Real-time observation of a metal complex-driven reaction intermediate using a porous protein crystal and serial femtosecond crystallography.,Maity B, Shoji M, Luo F, Nakane T, Abe S, Owada S, Kang J, Tono K, Tanaka R, Pham TT, Kojima M, Hishikawa Y, Tanaka J, Tian J, Nagama M, Suzuki T, Noya H, Nakasuji Y, Asanuma A, Yao X, Iwata S, Shigeta Y, Nango E, Ueno T Nat Commun. 2024 Jun 29;15(1):5518. doi: 10.1038/s41467-024-49814-9. PMID:38951539<ref>PMID:38951539</ref>
-Description: SFX structure of an Mn-carbonyl complex immobilized in hen egg white lysozyme microcrystals, 100 ns after photoexcitation at RT.
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Owada, S]]
+<div class="pdbe-citations 8wzr" style="background-color:#fffaf0;"></div>
-[[Category: Shigeta, Y]]
+== References ==
-[[Category: Nakasuji, Y]]
+<references/>
-[[Category: Luo, F]]
+__TOC__
-[[Category: Nakane, T]]
+</StructureSection>
-[[Category: Tian, J]]
+[[Category: Gallus gallus]]
-[[Category: Asanuma, A]]
+[[Category: Large Structures]]
-[[Category: Hishikawa, Y]]
+[[Category: Abe S]]
-[[Category: Iwata, S]]
+[[Category: Asanuma A]]
-[[Category: Maity, B]]
+[[Category: Hishikawa Y]]
-[[Category: Kang, J]]
+[[Category: Iwata S]]
-[[Category: Shoji, M]]
+[[Category: Kang J]]
-[[Category: Yao, X]]
+[[Category: Kojima M]]
-[[Category: Thuc, T.T]]
+[[Category: Luo F]]
-[[Category: Ueno, T]]
+[[Category: Maity B]]
-[[Category: Abe, S]]
+[[Category: Nakane T]]
-[[Category: Kojima, M]]
+[[Category: Nakasuji Y]]
-[[Category: Tanaka, R]]
+[[Category: Nango E]]
-[[Category: Tanaka, J]]
+[[Category: Noya H]]
-[[Category: Tono, K]]
+[[Category: Owada S]]
-[[Category: Nango, E]]
+[[Category: Shigeta Y]]
-[[Category: Noya, H]]
+[[Category: Shoji M]]
+[[Category: Tanaka J]]
+[[Category: Tanaka R]]
+[[Category: Thuc TT]]
+[[Category: Tian J]]
+[[Category: Tono K]]
+[[Category: Ueno T]]
+[[Category: Yao X]]