7lk8: Difference between revisions

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 ==Crystal structure of KPC-2 T215P mutant==
-<StructureSection load='7lk8' size='340' side='right'caption='[[7lk8]]' scene=''>
+<StructureSection load='7lk8' size='340' side='right'caption='[[7lk8]], [[Resolution|resolution]] 1.43&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7LK8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7LK8 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[7lk8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_pneumoniae"_(schroeter_1886)_flugge_1886 "bacillus pneumoniae" (schroeter 1886) flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7LK8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7LK8 FirstGlance]. <br>
-</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=7lk8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7lk8 OCA], [https://pdbe.org/7lk8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7lk8 RCSB], [https://www.ebi.ac.uk/pdbsum/7lk8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7lk8 ProSAT]</span></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">KPC-2, bla, bla_1, bla_4, blaKPC, blaKPC-2, kpc2, B4U25_43300, BANRA_05566, C2U49_28140, C3F39_16210, C3F39_28515, C3F39_28975, C4Y50_021815, CK508_026140, DM059_13800, DM060_30440, DM078_27040, DN589_26110, EAO17_31575, FKC87_27985, GF489_24625, GS419_28405, IPF_358, KP64477d_00006, KPC_069, p628KPC_020, pCRE79_15, pCT-KPC_129, pFOS18_014, pkp469IL_0095, pkp53il_00095, SAMEA3649709_04840, SAMEA3649772_05181, UC330_005, UC332_005, UC334_005 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=573 "Bacillus pneumoniae" (Schroeter 1886) Flugge 1886])</td></tr>
+<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Beta-lactamase Beta-lactamase], with EC number [https://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=7lk8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7lk8 OCA], [https://pdbe.org/7lk8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7lk8 RCSB], [https://www.ebi.ac.uk/pdbsum/7lk8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7lk8 ProSAT]</span></td></tr>
 </table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The Klebsiella pneumoniae carbapenemase-2 (KPC-2) is a common source of antibiotic resistance in Gram-negative bacterial infections. KPC-2 is a class A beta-lactamase that exhibits a broad substrate profile, and hydrolyzes most beta-lactam antibiotics including carbapenems due to rapid deacylation of the covalent acyl-enzyme intermediate. However, the features that allow KPC-2 to deacylate substrates more rapidly than non-carbapenemase enzymes are not clear. The active-site residues in KPC-2 are largely conserved in sequence and structure compared to non-carbapenemases, suggesting that subtle alterations may collectively facilitate hydrolysis of carbapenems. We utilized a non-biased genetic approach to identify mutants deficient in carbapenem hydrolysis, but competent for ampicillin hydrolysis. Subsequent pre-steady state enzyme kinetics analyses showed that the substitutions slow the rate of deacylation of carbapenems. Structure determination via X-ray diffraction indicated that a F72Y mutant forms a hydrogen bond between the tyrosine hydroxyl group and Glu166, which may lower basicity and impair the activation of the catalytic water for deacylation, while several mutants impact the structure of the Q214-R220 active site loop. A T215P substitution lowers the deacylation rate and drastically alters the conformation of the loop, thereby disrupting interactions between the enzyme and the carbapenem acyl-enzyme intermediate. Thus, the environment of the Glu166 general base and the precise placement and conformational stability of the Q214-R220 loop are critical for efficient deacylation of carbapenems by the KPC-2 enzyme. Therefore, the design of carbapenem antibiotics that interact with Glu166 or alter the Q214-R220 loop conformation may disrupt enzyme function and overcome resistance.
+Local Interactions with the Glu166 Base and the Conformation of an Active Site Loop Play Key Roles in Carbapenem Hydrolysis by the KPC-2 beta-lactamase.,Furey IM, Mehta SC, Sankaran B, Hu L, Prasad BVV, Palzkill T J Biol Chem. 2021 May 19:100799. doi: 10.1016/j.jbc.2021.100799. PMID:34022225<ref>PMID:34022225</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 7lk8" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
 __TOC__
 </StructureSection>
+[[Category: Beta-lactamase]]
 [[Category: Large Structures]]
-[[Category: Furey I]]
+[[Category: Furey, I]]
-[[Category: Hu L]]
+[[Category: Hu, L]]
-[[Category: Palzkill T]]
+[[Category: Palzkill, T]]
-[[Category: Prasad BVV]]
+[[Category: Prasad, B V.V]]
+[[Category: Antibiotic]]
+[[Category: Antibiotic resistance]]
+[[Category: Beta-lactam]]
+[[Category: Carbapenemase]]
+[[Category: Enzyme]]
+[[Category: Hydrolase]]
+[[Category: Kpc]]