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4jiu

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==Crystal structure of the metallopeptidase zymogen of Pyrococcus abyssi abylysin==
==Crystal structure of the metallopeptidase zymogen of Pyrococcus abyssi abylysin==
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<StructureSection load='4jiu' size='340' side='right' caption='[[4jiu]], [[Resolution|resolution]] 1.15&Aring;' scene=''>
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<StructureSection load='4jiu' size='340' side='right'caption='[[4jiu]], [[Resolution|resolution]] 1.15&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4jiu]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrab Pyrab]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JIU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4JIU FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4jiu]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_abyssi_GE5 Pyrococcus abyssi GE5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JIU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4JIU FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.15&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4jix|4jix]]</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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PAB3079, PYRAB02920 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=272844 PYRAB])</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=4jiu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jiu OCA], [https://pdbe.org/4jiu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4jiu RCSB], [https://www.ebi.ac.uk/pdbsum/4jiu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4jiu ProSAT]</span></td></tr>
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<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=4jiu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jiu OCA], [http://pdbe.org/4jiu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4jiu RCSB], [http://www.ebi.ac.uk/pdbsum/4jiu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4jiu ProSAT]</span></td></tr>
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</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/Q9V1Y2_PYRAB Q9V1Y2_PYRAB]
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In the search for structural models of integral-membrane metallopeptidases (MPs), we discovered three related proteins from thermophilic prokaryotes, which we grouped into a novel family called "minigluzincins." We determined the crystal structures of the zymogens of two of these (Pyrococcus abyssi proabylysin and Methanocaldococcus jannaschii projannalysin), which are soluble and, with approximately 100 residues, constitute the shortest structurally characterized MPs to date. Despite relevant sequence and structural similarity, the structures revealed two unique mechanisms of latency maintenance through the C-terminal segments previously unseen in MPs as follows: intramolecular, through an extended tail, in proabylysin, and crosswise intermolecular, through a helix swap, in projannalysin. In addition, structural and sequence comparisons revealed large similarity with MPs of the gluzincin tribe such as thermolysin, leukotriene A4 hydrolase relatives, and cowrins. Noteworthy, gluzincins mostly contain a glutamate as third characteristic zinc ligand, whereas minigluzincins have a histidine. Sequence and structural similarity further allowed us to ascertain that minigluzincins are very similar to the catalytic domains of integral membrane MPs of the MEROPS database families M48 and M56, such as FACE1, HtpX, Oma1, and BlaR1/MecR1, which are provided with trans-membrane helices flanking or inserted into a minigluzincin-like catalytic domain. In a time where structural biochemistry of integral-membrane proteins in general still faces formidable challenges, the minigluzincin soluble minimal scaffold may contribute to our understanding of the working mechanisms of these membrane MPs and to the design of novel inhibitors through structure-aided rational drug design approaches.
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A novel family of soluble minimal scaffolds provides structural insight into the catalytic domains of integral membrane metallopeptidases.,Lopez-Pelegrin M, Cerda-Costa N, Martinez-Jimenez F, Cintas-Pedrola A, Canals A, Peinado JR, Marti-Renom MA, Lopez-Otin C, Arolas JL, Gomis-Ruth FX J Biol Chem. 2013 Jul 19;288(29):21279-94. doi: 10.1074/jbc.M113.476580. Epub, 2013 Jun 3. PMID:23733187<ref>PMID:23733187</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 4jiu" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Pyrab]]
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[[Category: Large Structures]]
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[[Category: Arolas, J L]]
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[[Category: Pyrococcus abyssi GE5]]
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[[Category: Canals, A]]
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[[Category: Arolas JL]]
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[[Category: Cerda-Costa, N]]
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[[Category: Canals A]]
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[[Category: Cintas-Pedrola, A]]
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[[Category: Cerda-Costa N]]
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[[Category: Gomis-Ruth, F X]]
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[[Category: Cintas-Pedrola A]]
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[[Category: Lopez-Otin, C]]
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[[Category: Gomis-Ruth FX]]
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[[Category: Lopez-Pelegrin, M]]
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[[Category: Lopez-Otin C]]
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[[Category: Marti-Renom, M A]]
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[[Category: Lopez-Pelegrin M]]
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[[Category: Martinez-Jimenez, F]]
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[[Category: Marti-Renom MA]]
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[[Category: Peinado, J R]]
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[[Category: Martinez-Jimenez F]]
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[[Category: Hydrolase]]
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[[Category: Peinado JR]]
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[[Category: Metallopeptidase zymogen]]
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[[Category: Minigluzincin]]
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Current revision

Crystal structure of the metallopeptidase zymogen of Pyrococcus abyssi abylysin

PDB ID 4jiu

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