6mz2: Difference between revisions
New page: '''Unreleased structure''' The entry 6mz2 is ON HOLD Authors: Description: Category: Unreleased Structures |
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The | ==CTX-M-14 Class A Beta-Lactamase in Complex with Avibactam at pH 7.9== | ||
<StructureSection load='6mz2' size='340' side='right'caption='[[6mz2]], [[Resolution|resolution]] 0.83Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[6mz2]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MZ2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6MZ2 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]] 0.83Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NXL:(2S,5R)-1-FORMYL-5-[(SULFOOXY)AMINO]PIPERIDINE-2-CARBOXAMIDE'>NXL</scene>, <scene name='pdbligand=PCA:PYROGLUTAMIC+ACID'>PCA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=6mz2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mz2 OCA], [https://pdbe.org/6mz2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6mz2 RCSB], [https://www.ebi.ac.uk/pdbsum/6mz2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6mz2 ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/Q9L5C7_ECOLX Q9L5C7_ECOLX] | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Gram-negative bacteria expressing class A beta-lactamases pose a serious health threat due to their ability to inactivate all beta-lactam antibiotics. The acyl-enzyme intermediate is a central milestone in the hydrolysis reaction catalyzed by these enzymes. However, the protonation states of the catalytic residues in this complex have never been fully analyzed experimentally due to inherent difficulties. To help unravel the ambiguity surrounding class A beta-lactamase catalysis, we have used ultrahigh-resolution X-ray crystallography and the recently approved beta-lactamase inhibitor avibactam to trap the acyl-enzyme complex of class A beta-lactamase CTX-M-14 at varying pHs. A 0.83-A-resolution CTX-M-14 complex structure at pH 7.9 revealed a neutral state for both Lys73 and Glu166. Furthermore, the avibactam hydroxylamine-O-sulfonate group conformation varied according to pH, and this conformational switch appeared to correspond to a change in the Lys73 protonation state at low pH. In conjunction with computational analyses, our structures suggest that Lys73 has a perturbed acid dissociation constant (pKa) compared with acyl-enzyme complexes with beta-lactams, hindering its function to deprotonate Glu166 and the initiation of the deacylation reaction. Further NMR analysis demonstrated Lys73 pKa to be approximately 5.2 to 5.6. Together with previous ultrahigh-resolution crystal structures, these findings enable us to follow the proton transfer process of the entire acylation reaction and reveal the critical role of Lys73. They also shed light on the stability and reversibility of the avibactam carbamoyl acyl-enzyme complex, highlighting the effect of substrate functional groups in influencing the protonation states of catalytic residues and subsequently the progression of the reaction. | |||
Mechanism of proton transfer in class A beta-lactamase catalysis and inhibition by avibactam.,Pemberton OA, Noor RE, Kumar M V V, Sanishvili R, Kemp MT, Kearns FL, Woodcock HL, Gelis I, Chen Y Proc Natl Acad Sci U S A. 2020 Mar 2. pii: 1922203117. doi:, 10.1073/pnas.1922203117. PMID:32123084<ref>PMID:32123084</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
[[Category: | </div> | ||
<div class="pdbe-citations 6mz2" style="background-color:#fffaf0;"></div> | |||
==See Also== | |||
*[[Beta-lactamase 3D structures|Beta-lactamase 3D structures]] | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Escherichia coli]] | |||
[[Category: Large Structures]] | |||
[[Category: Chen Y]] | |||
[[Category: Pemberton OA]] | |||
Latest revision as of 09:42, 11 October 2023
CTX-M-14 Class A Beta-Lactamase in Complex with Avibactam at pH 7.9CTX-M-14 Class A Beta-Lactamase in Complex with Avibactam at pH 7.9
Structural highlights
FunctionPublication Abstract from PubMedGram-negative bacteria expressing class A beta-lactamases pose a serious health threat due to their ability to inactivate all beta-lactam antibiotics. The acyl-enzyme intermediate is a central milestone in the hydrolysis reaction catalyzed by these enzymes. However, the protonation states of the catalytic residues in this complex have never been fully analyzed experimentally due to inherent difficulties. To help unravel the ambiguity surrounding class A beta-lactamase catalysis, we have used ultrahigh-resolution X-ray crystallography and the recently approved beta-lactamase inhibitor avibactam to trap the acyl-enzyme complex of class A beta-lactamase CTX-M-14 at varying pHs. A 0.83-A-resolution CTX-M-14 complex structure at pH 7.9 revealed a neutral state for both Lys73 and Glu166. Furthermore, the avibactam hydroxylamine-O-sulfonate group conformation varied according to pH, and this conformational switch appeared to correspond to a change in the Lys73 protonation state at low pH. In conjunction with computational analyses, our structures suggest that Lys73 has a perturbed acid dissociation constant (pKa) compared with acyl-enzyme complexes with beta-lactams, hindering its function to deprotonate Glu166 and the initiation of the deacylation reaction. Further NMR analysis demonstrated Lys73 pKa to be approximately 5.2 to 5.6. Together with previous ultrahigh-resolution crystal structures, these findings enable us to follow the proton transfer process of the entire acylation reaction and reveal the critical role of Lys73. They also shed light on the stability and reversibility of the avibactam carbamoyl acyl-enzyme complex, highlighting the effect of substrate functional groups in influencing the protonation states of catalytic residues and subsequently the progression of the reaction. Mechanism of proton transfer in class A beta-lactamase catalysis and inhibition by avibactam.,Pemberton OA, Noor RE, Kumar M V V, Sanishvili R, Kemp MT, Kearns FL, Woodcock HL, Gelis I, Chen Y Proc Natl Acad Sci U S A. 2020 Mar 2. pii: 1922203117. doi:, 10.1073/pnas.1922203117. PMID:32123084[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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