3rkk

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<StructureSection load='3rkk' size='340' side='right'caption='[[3rkk]], [[Resolution|resolution]] 2.35&Aring;' scene=''>
<StructureSection load='3rkk' size='340' side='right'caption='[[3rkk]], [[Resolution|resolution]] 2.35&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[3rkk]] 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=3RKK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RKK FirstGlance]. <br>
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<table><tr><td colspan='2'>[[3rkk]] 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=3RKK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RKK FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.35&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3rkj|3rkj]]</div></td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">blaNDM-1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=573 "Bacillus pneumoniae" (Schroeter 1886) Flugge 1886])</td></tr>
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<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>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3rkk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rkk OCA], [https://pdbe.org/3rkk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rkk RCSB], [https://www.ebi.ac.uk/pdbsum/3rkk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rkk ProSAT]</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=3rkk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rkk OCA], [https://pdbe.org/3rkk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rkk RCSB], [https://www.ebi.ac.uk/pdbsum/3rkk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rkk ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
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[[https://www.uniprot.org/uniprot/BLAN1_KLEPN BLAN1_KLEPN]] Confers resistance to many beta-lactam antibiotics, including some carbapenems. Does not confer resistance to the polymixin colistin or the fluoroquinolone ciprofloxacin.
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[https://www.uniprot.org/uniprot/BLAN1_KLEPN BLAN1_KLEPN] Confers resistance to many beta-lactam antibiotics, including some carbapenems. Does not confer resistance to the polymixin colistin or the fluoroquinolone ciprofloxacin.
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The New Delhi Metallo-beta-lactamase (NDM-1) gene makes multiple pathogenic microorganisms resistant to all known beta-lactam antibiotics. The rapid emergence of NDM-1 has been linked to mobile plasmids that move between different strains resulting in world-wide dissemination. Biochemical studies revealed that NDM-1 is capable of efficiently hydrolyzing a wide range of beta-lactams, including many carbapenems considered as "last resort" antibiotics. The crystal structures of metal-free apo- and monozinc forms of NDM-1 presented here revealed an enlarged and flexible active site of class B1 metallo-beta-lactamase. This site is capable of accommodating many beta-lactam substrates by having many of the catalytic residues on flexible loops, which explains the observed extended spectrum activity of this zinc dependent beta-lactamase. Indeed, five loops contribute "keg" residues in the active site including side chains involved in metal binding. Loop 1 in particular, shows conformational flexibility, apparently related to the acceptance and positioning of substrates for cleavage by a zinc-activated water molecule.
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Structure of apo- and monometalated forms of NDM-1--a highly potent carbapenem-hydrolyzing metallo-beta-lactamase.,Kim Y, Tesar C, Mire J, Jedrzejczak R, Binkowski A, Babnigg G, Sacchettini J, Joachimiak A PLoS One. 2011;6(9):e24621. Epub 2011 Sep 8. PMID:21931780<ref>PMID:21931780</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 3rkk" style="background-color:#fffaf0;"></div>
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==See Also==
==See Also==
*[[Beta-lactamase 3D structures|Beta-lactamase 3D structures]]
*[[Beta-lactamase 3D structures|Beta-lactamase 3D structures]]
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== References ==
 
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<references/>
 
__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Beta-lactamase]]
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[[Category: Klebsiella pneumoniae]]
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Babnigg, G]]
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[[Category: Babnigg G]]
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[[Category: Binkowski, T A]]
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[[Category: Binkowski TA]]
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[[Category: Jedrzejczak, R]]
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[[Category: Jedrzejczak R]]
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[[Category: Joachimiak, A]]
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[[Category: Joachimiak A]]
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[[Category: Kim, Y]]
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[[Category: Kim Y]]
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[[Category: Structural genomic]]
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[[Category: Sacchettini J]]
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[[Category: MTBI, Structures of Mtb Proteins Conferring Susceptibility to Known Mtb Inhibitors]]
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[[Category: Tesar C]]
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[[Category: Sacchettini, J]]
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[[Category: Tesar, C]]
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[[Category: Alpha-beta structure]]
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[[Category: Hydrolase]]
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[[Category: Mcsg]]
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[[Category: Mtbi]]
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[[Category: Psi-biology]]
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[[Category: Structures of mtb proteins conferring susceptibility to known mtb inhibitor]]
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Current revision

Crystal Structure of New Delhi Metallo-Beta-Lactamase-1 from Klebsiella pneumoniae

PDB ID 3rkk

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Proteopedia Page Contributors and Editors (what is this?)

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