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| | ==Crystal structure of KPC-2 beta-lactamase in complex with the S02030 boronic acid inhibitor== | | ==Crystal structure of KPC-2 beta-lactamase in complex with the S02030 boronic acid inhibitor== |
| - | <StructureSection load='5eec' size='340' side='right' caption='[[5eec]], [[Resolution|resolution]] 1.87Å' scene=''> | + | <StructureSection load='5eec' size='340' side='right'caption='[[5eec]], [[Resolution|resolution]] 1.87Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5eec]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EEC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EEC FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5eec]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Klebsiella_pneumoniae Klebsiella pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EEC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5EEC FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZXM:1-{(2R)-2-(DIHYDROXYBORANYL)-2-[(THIOPHEN-2-YLACETYL)AMINO]ETHYL}-1H-1,2,3-TRIAZOLE-4-CARBOXYLIC+ACID'>ZXM</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]] 1.87Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5ee8|5ee8]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZXM:1-{(2R)-2-(DIHYDROXYBORANYL)-2-[(THIOPHEN-2-YLACETYL)AMINO]ETHYL}-1H-1,2,3-TRIAZOLE-4-CARBOXYLIC+ACID'>ZXM</scene></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-lactamase Beta-lactamase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.6 3.5.2.6] </span></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=5eec FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5eec OCA], [https://pdbe.org/5eec PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5eec RCSB], [https://www.ebi.ac.uk/pdbsum/5eec PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5eec ProSAT]</span></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5eec FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5eec OCA], [http://pdbe.org/5eec PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5eec RCSB], [http://www.ebi.ac.uk/pdbsum/5eec PDBsum]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/BLKPC_KLEPN BLKPC_KLEPN]] Hydrolyzes carbapenems, penicillins, cephalosporins and monobactams with varying efficiency. | + | [https://www.uniprot.org/uniprot/BLKPC_KLEPN BLKPC_KLEPN] Hydrolyzes carbapenems, penicillins, cephalosporins and monobactams with varying efficiency. |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | </div> | | </div> |
| | <div class="pdbe-citations 5eec" style="background-color:#fffaf0;"></div> | | <div class="pdbe-citations 5eec" style="background-color:#fffaf0;"></div> |
| | + | |
| | + | ==See Also== |
| | + | *[[Beta-lactamase 3D structures|Beta-lactamase 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Beta-lactamase]] | + | [[Category: Klebsiella pneumoniae]] |
| - | [[Category: Akker, F van den]] | + | [[Category: Large Structures]] |
| - | [[Category: Nguyen, N Q]] | + | [[Category: Nguyen NQ]] |
| - | [[Category: Hydrolase-hydrolase inhibitor complex]] | + | [[Category: Van den Akker F]] |
| - | [[Category: Transition state inhibitor]]
| + | |
| Structural highlights
Function
BLKPC_KLEPN Hydrolyzes carbapenems, penicillins, cephalosporins and monobactams with varying efficiency.
Publication Abstract from PubMed
Resistance to expanded-spectrum cephalosporins and carbapenems has rendered certain strains of Klebsiella pneumoniae as the most problematic pathogens infecting patients in the hospital and community. This broad spectrum resistance to beta-lactamas emerges in part via the expression of KPC-2 and SHV-1 beta-lactamases, and variants thereof, KPC-2 carbapenemase is particularly worrisome as the genetic determinant encoding this beta-lactamase is rapidly spread via plasmids. Moreover, KPC-2, a class A enzyme, is difficult to inhibit with mechanism based inactivators (i.e. clavulanate). In order to develop new beta-lactamase inhibitors (BLIs) to add to the limited available armamentarium that can inhibit KPC-2, we have structurally probed the boronic acid transition state analog S02030 for its inhibition of KPC-2 and SHV-1. S02030 contains a boronic acid, a thiophene, and a carboxyl triazole moiety. We present here the 1.54 and 1.87 A resolution crystal structures of S02030 bound to SHV-1 and KPC-2 beta-lactamases, respectively, as well as a comparative analysis of the S02030 binding modes including a previously determined S02030 Class C ADC-7 beta-lactamase complex. Upon analysis, S02030 is able to inhibit vastly different serine beta-lactamases by interacting with the conserved features of these actives sites which includes i) forming the bond with catalytic serine via the boron atom; ii) positioning of one of the boronic acid oxygens in the oxyanion hole; and iii) utilizing its amide moiety to make conserved interactions across the width of the active site. In addition, S02030 is able to overcome more distantly located structural differences between the beta-lactamases. This unique feature is achieved by re-positionig the more polar carboxyl-triazole moiety, generated by click chemistry, to create polar interactions as well as reorient the more hydrophobic thiophene moiety. The former is aided by the unusual polar nature of the triazole ring allowing it to potentially form a unique C-H ...O 2.9A hydrogen bond with S130 in KPC-2.
Crystal structures of KPC-2 and SHV-1 beta-lactamases in complex with the boronic acid transition state analog S02030.,Nguyen NQ, Krishnan NP, Rojas LJ, Prati F, Caselli E, Romagnoli C, Bonomo RA, van den Akker F Antimicrob Agents Chemother. 2016 Jan 4. pii: AAC.02643-15. PMID:26729491[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Nguyen NQ, Krishnan NP, Rojas LJ, Prati F, Caselli E, Romagnoli C, Bonomo RA, van den Akker F. Crystal structures of KPC-2 and SHV-1 beta-lactamases in complex with the boronic acid transition state analog S02030. Antimicrob Agents Chemother. 2016 Jan 4. pii: AAC.02643-15. PMID:26729491 doi:http://dx.doi.org/10.1128/AAC.02643-15
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