2p9v: Difference between revisions

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New page: left|200px<br /><applet load="2p9v" size="450" color="white" frame="true" align="right" spinBox="true" caption="2p9v, resolution 1.80Å" /> '''Structure of AmpC be...
 
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[[Image:2p9v.jpg|left|200px]]<br /><applet load="2p9v" size="450" color="white" frame="true" align="right" spinBox="true"
caption="2p9v, resolution 1.80&Aring;" />
'''Structure of AmpC beta-lactamase with cross-linked active site after exposure to small molecule inhibitor'''<br />


==Overview==
==Structure of AmpC beta-lactamase with cross-linked active site after exposure to small molecule inhibitor==
O-Aryloxycarbonyl hydroxamates represent a new class of beta-lactamase, inhibitors. N-Benzyloxycarbonyl-O-(phenoxycarbonyl) hydroxylamine, for, example, inactivates the class C Enterobacter cloacae P99 beta-lactamase, with a rate constant of 6.1 x 103 s-1 M-1; approximately two turnover, events accompany the inhibition., N-Benzyloxycarbonyl-O-[(3-carboxyphenoxy)carbonyl] hydroxylamine is, comparably effective. These compounds also inactivate the class A TEM, beta-lactamase. A crystal structure of the inactivated AmpC enzyme, another class C beta-lactamase, reveals that the active site has become, cross-linked by a carbamate bridge spanning Ser64, the active site, nucleophile, and Lys315, a conserved active site residue.
<StructureSection load='2p9v' size='340' side='right'caption='[[2p9v]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[2p9v]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P9V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2P9V FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ampC, ampA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=2p9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p9v OCA], [https://pdbe.org/2p9v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2p9v RCSB], [https://www.ebi.ac.uk/pdbsum/2p9v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2p9v ProSAT]</span></td></tr>
</table>
== Function ==
[[https://www.uniprot.org/uniprot/AMPC_ECOLI AMPC_ECOLI]] This protein is a serine beta-lactamase with a substrate specificity for cephalosporins.
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/p9/2p9v_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2p9v ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
2P9V is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with PO4 as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [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] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2P9V OCA].
*[[Beta-lactamase 3D structures|Beta-lactamase 3D structures]]
 
__TOC__
==Reference==
</StructureSection>
O-Aryloxycarbonyl Hydroxamates: New beta-Lactamase Inhibitors That Cross-Link the Active Site., Wyrembak PN, Babaoglu K, Pelto RB, Shoichet BK, Pratt RF, J Am Chem Soc. 2007 Aug 8;129(31):9548-9. Epub 2007 Jul 12. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17628063 17628063]
[[Category: Bacillus coli migula 1895]]
[[Category: Beta-lactamase]]
[[Category: Beta-lactamase]]
[[Category: Escherichia coli]]
[[Category: Large Structures]]
[[Category: Protein complex]]
[[Category: Babaoglu, K]]
[[Category: Babaoglu, K.]]
[[Category: Pelto, R B]]
[[Category: Pelto, R.B.]]
[[Category: Pratt, R F]]
[[Category: Pratt, R.F.]]
[[Category: Shoichet, B K]]
[[Category: Shoichet, B.K.]]
[[Category: Wyrembak, P N]]
[[Category: Wyrembak, P.N.]]
[[Category: Cross-link]]
[[Category: PO4]]
[[Category: Hydrolase]]
[[Category: beta-lactamase]]
[[Category: cross-link]]
[[Category: hydrolase]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 13:28:29 2007''

Latest revision as of 18:19, 17 June 2021

Structure of AmpC beta-lactamase with cross-linked active site after exposure to small molecule inhibitorStructure of AmpC beta-lactamase with cross-linked active site after exposure to small molecule inhibitor

Structural highlights

2p9v is a 2 chain structure with sequence from "bacillus_coli"_migula_1895 "bacillus coli" migula 1895. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
NonStd Res:
Gene:ampC, ampA ("Bacillus coli" Migula 1895)
Activity:Beta-lactamase, with EC number 3.5.2.6
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[AMPC_ECOLI] This protein is a serine beta-lactamase with a substrate specificity for cephalosporins.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

2p9v, resolution 1.80Å

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OCA
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