1i78

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[[Image:1i78.jpg|left|200px]]
 
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{{Structure
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==CRYSTAL STRUCTURE OF OUTER MEMBRANE PROTEASE OMPT FROM ESCHERICHIA COLI==
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|PDB= 1i78 |SIZE=350|CAPTION= <scene name='initialview01'>1i78</scene>, resolution 2.6&Aring;
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<StructureSection load='1i78' size='340' side='right'caption='[[1i78]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene> and <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>
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<table><tr><td colspan='2'>[[1i78]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I78 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1I78 FirstGlance]. <br>
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|ACTIVITY= [http://en.wikipedia.org/wiki/Omptin Omptin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.23.49 3.4.23.49]
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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]] 2.6&#8491;</td></tr>
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|GENE= OMPT ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
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}}
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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=1i78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1i78 OCA], [https://pdbe.org/1i78 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1i78 RCSB], [https://www.ebi.ac.uk/pdbsum/1i78 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1i78 ProSAT]</span></td></tr>
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</table>
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'''CRYSTAL STRUCTURE OF OUTER MEMBRANE PROTEASE OMPT FROM ESCHERICHIA COLI'''
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== Function ==
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[https://www.uniprot.org/uniprot/OMPT_ECOLI OMPT_ECOLI] Protease that can cleave T7 RNA polymerase, ferric enterobactin receptor protein (FEP), antimicrobial peptide protamine and other proteins. This protease has a specificity for paired basic residues.<ref>PMID:9683502</ref>
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== Evolutionary Conservation ==
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==Overview==
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[[Image:Consurf_key_small.gif|200px|right]]
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OmpT from Escherichia coli belongs to a family of highly homologous outer membrane proteases, known as omptins, which are implicated in the virulence of several pathogenic Gram-negative bacteria. Here we present the crystal structure of OmpT, which shows a 10-stranded antiparallel beta-barrel that protrudes far from the lipid bilayer into the extracellular space. We identified a putative binding site for lipopolysaccharide, a molecule that is essential for OmpT activity. The proteolytic site is located in a groove at the extracellular top of the vase-shaped beta-barrel. Based on the constellation of active site residues, we propose a novel proteolytic mechanism, involving a His-Asp dyad and an Asp-Asp couple that activate a putative nucleophilic water molecule. The active site is fully conserved within the omptin family. Therefore, the structure described here provides a sound basis for the design of drugs against omptin-mediated bacterial pathogenesis. Coordinates are in the Protein Data Bank (accession No. 1I78)
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Check<jmol>
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<jmolCheckbox>
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==About this Structure==
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/i7/1i78_consurf.spt"</scriptWhenChecked>
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1I78 is a [[Single protein]] structure of 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=1I78 OCA].
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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==Reference==
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</jmolCheckbox>
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Crystal structure of the outer membrane protease OmpT from Escherichia coli suggests a novel catalytic site., Vandeputte-Rutten L, Kramer RA, Kroon J, Dekker N, Egmond MR, Gros P, EMBO J. 2001 Sep 17;20(18):5033-9. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11566868 11566868]
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</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=1i78 ConSurf].
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[[Category: Escherichia coli]]
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<div style="clear:both"></div>
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[[Category: Omptin]]
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== References ==
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[[Category: Single protein]]
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<references/>
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[[Category: Dekker, N.]]
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__TOC__
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[[Category: Egmond, M R.]]
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</StructureSection>
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[[Category: Gros, P.]]
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[[Category: Escherichia coli K-12]]
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[[Category: Kramer, R A.]]
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[[Category: Large Structures]]
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[[Category: Kroon, J.]]
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[[Category: Dekker N]]
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[[Category: Vandeputte-Rutten, L.]]
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[[Category: Egmond MR]]
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[[Category: BOG]]
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[[Category: Gros P]]
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[[Category: MPD]]
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[[Category: Kramer RA]]
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[[Category: beta barrel]]
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[[Category: Kroon J]]
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[[Category: integral outer membrane protein]]
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[[Category: Vandeputte-Rutten L]]
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[[Category: protease]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 11:46:34 2008''
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Current revision

CRYSTAL STRUCTURE OF OUTER MEMBRANE PROTEASE OMPT FROM ESCHERICHIA COLI

PDB ID 1i78

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