3s0z

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure of New Delhi Metallo-beta-lactamase (NDM-1)

Structural highlights

3s0z is a 2 chain structure with sequence from Escherichia coli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.5Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

E5KIY2_ECOLX

Publication Abstract from PubMed

Gram-negative Enterobacteriaceae with resistance to carbapenem conferred by New Delhi metallo-beta-lactamase 1 (NDM-1) are a type of newly discovered antibioticresistant bacteria. The rapid pandemic spread of NDM-1 bacteria worldwide (spreading to India, Pakistan, Europe, America, and Chinese Taiwan) in less than 2 months characterizes these microbes as a potentially major global health problem. The drug resistance of NDM-1 bacteria is largely due to plasmids containing the blaNDM-1 gene shuttling through bacterial populations. The NDM-1 enzyme encoded by the blaNDM-1 gene hydrolyzes beta-lactam antibiotics, allowing the bacteria to escape the action of antibiotics. Although the biological functions and structural features of NDM-1 have been proposed according to results from functional and structural investigation of its homologues, the precise molecular characteristics and mechanism of action of NDM-1 have not been clarified. Here, we report the three-dimensional structure of NDM-1 with two catalytic zinc ions in its active site. Biological and mass spectroscopy results revealed that D-captopril can effectively inhibit the enzymatic activity of NDM-1 by binding to its active site with high binding affinity. The unique features concerning the primary sequence and structural conformation of the active site distinguish NDM-1 from other reported metallo-beta-lactamases (MBLs) and implicate its role in wide spectrum drug resistance. We also discuss the molecular mechanism of NDM-1 action and its essential role in the pandemic of drug-resistant NDM-1 bacteria. Our results will provide helpful information for future drug discovery targeting drug resistance caused by NDM-1 and related metallo-beta-lactamases.

A structural view of the antibiotic degradation enzyme NDM-1 from a superbug.,Guo Y, Wang J, Niu G, Shui W, Sun Y, Zhou H, Zhang Y, Yang C, Lou Z, Rao Z Protein Cell. 2011 May;2(5):384-94. Epub 2011 Jun 2. PMID:21637961^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Guo Y, Wang J, Niu G, Shui W, Sun Y, Zhou H, Zhang Y, Yang C, Lou Z, Rao Z. A structural view of the antibiotic degradation enzyme NDM-1 from a superbug. Protein Cell. 2011 May;2(5):384-94. Epub 2011 Jun 2. PMID:21637961 doi:10.1007/s13238-011-1055-9

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3s0z"

@@ Line 1: / Line 1: @@
 ==Crystal structure of New Delhi Metallo-beta-lactamase (NDM-1)==
-<StructureSection load='3s0z' size='340' side='right' caption='[[3s0z]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
+<StructureSection load='3s0z' size='340' side='right'caption='[[3s0z]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3s0z]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3S0Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3S0Z FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3s0z]] 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=3S0Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3S0Z FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.5&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">blaNDM-1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=3s0z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3s0z OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3s0z RCSB], [http://www.ebi.ac.uk/pdbsum/3s0z PDBsum]</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=3s0z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3s0z OCA], [https://pdbe.org/3s0z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3s0z RCSB], [https://www.ebi.ac.uk/pdbsum/3s0z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3s0z ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/E5KIY2_ECOLX E5KIY2_ECOLX]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 15: / Line 18: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 3s0z" style="background-color:#fffaf0;"></div>
 ==See Also==
-*[[Beta-lactamase|Beta-lactamase]]
+*[[Beta-lactamase 3D structures|Beta-lactamase 3D structures]]
 == References ==
 <references/>
@@ Line 23: / Line 27: @@
 </StructureSection>
 [[Category: Escherichia coli]]
-[[Category: Guo, Y]]
+[[Category: Large Structures]]
-[[Category: Lou, Z Y]]
+[[Category: Guo Y]]
-[[Category: Niu, G J]]
+[[Category: Lou ZY]]
-[[Category: Rao, Z H]]
+[[Category: Niu GJ]]
-[[Category: Shui, W Q]]
+[[Category: Rao ZH]]
-[[Category: Sun, Y N]]
+[[Category: Shui WQ]]
-[[Category: Wang, J]]
+[[Category: Sun YN]]
-[[Category: Drug discovery]]
+[[Category: Wang J]]
-[[Category: Drug resistant]]
-[[Category: Hydrolase]]
-[[Category: Ndm-1]]
-[[Category: New delhi metallo-beta-lactamase 1]]

3s0z

From Proteopedia

Current revision

Crystal structure of New Delhi Metallo-beta-lactamase (NDM-1)

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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