1zp5: Difference between revisions

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-[[Image:1zp5.png|left|200px]]
-<!--
+==Crystal structure of the complex between MMP-8 and a N-hydroxyurea inhibitor==
-The line below this paragraph, containing "STRUCTURE_1zp5", creates the "Structure Box" on the page.
+<StructureSection load='1zp5' size='340' side='right'caption='[[1zp5]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[1zp5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZP5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZP5 FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2NI:N-{2-[(4-CYANO-1,1-BIPHENYL-4-YL)OXY]ETHYL}-N-HYDROXY-N-METHYLUREA'>2NI</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-{{STRUCTURE_1zp5|  PDB=1zp5  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1zp5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zp5 OCA], [https://pdbe.org/1zp5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1zp5 RCSB], [https://www.ebi.ac.uk/pdbsum/1zp5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1zp5 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/MMP8_HUMAN MMP8_HUMAN] Can degrade fibrillar type I, II, and III collagens.
+== 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/zp/1zp5_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=1zp5 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The first crystallographic structure of an N-hydroxyurea inhibitor bound into the active site of a matrix metalloproteinase is reported. The ligand and three other analogues were prepared and studied as inhibitors of MMP-2, MMP-3, and MMP-8. The crystal structure of the complex with MMP-8 shows that the N-hydroxyurea, contrary to the analogous hydroxamate, binds the catalytic zinc ion in a monodentate rather than bidentate mode and with high out-of-plane distortion of the amide bonds.
-===Crystal structure of the complex between MMP-8 and a N-hydroxyurea inhibitor===
+N-Hydroxyurea as zinc binding group in matrix metalloproteinase inhibition: mode of binding in a complex with MMP-8.,Campestre C, Agamennone M, Tortorella P, Preziuso S, Biasone A, Gavuzzo E, Pochetti G, Mazza F, Hiller O, Tschesche H, Consalvi V, Gallina C Bioorg Med Chem Lett. 2006 Jan 1;16(1):20-4. Epub 2005 Oct 18. PMID:16242329<ref>PMID:16242329</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1zp5" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_16242329}}, adds the Publication Abstract to the page
+*[[Matrix metalloproteinase 3D structures|Matrix metalloproteinase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 16242329 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_16242329}}
+__TOC__
+</StructureSection>
-==About this Structure==
-[[1zp5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZP5 OCA].
-==Reference==
-<ref group="xtra">PMID:16242329</ref><ref group="xtra">PMID:12171558</ref><ref group="xtra">PMID:7577999</ref><ref group="xtra">PMID:11412979</ref><references group="xtra"/>
 [[Category: Homo sapiens]]
-[[Category: Neutrophil collagenase]]
+[[Category: Large Structures]]
-[[Category: Agamennone, M.]]
+[[Category: Agamennone M]]
-[[Category: Biasone, A.]]
+[[Category: Biasone A]]
-[[Category: Campestre, C.]]
+[[Category: Campestre C]]
-[[Category: Gallina, C.]]
+[[Category: Gallina C]]
-[[Category: Gavuzzo, E.]]
+[[Category: Gavuzzo E]]
-[[Category: Mazza, F.]]
+[[Category: Mazza F]]
-[[Category: Pochetti, G.]]
+[[Category: Pochetti G]]
-[[Category: Preziuso, S.]]
+[[Category: Preziuso S]]
-[[Category: Tortorella, P.]]
+[[Category: Tortorella P]]
-[[Category: Tschesche, H.]]
+[[Category: Tschesche H]]
-[[Category: Hydrolase]]