1zp5: Difference between revisions

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-{{Seed}}
-[[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==
-ZP5 is a [[Single protein]] structure of 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==
-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:[http://www.ncbi.nlm.nih.gov/pubmed/16242329 16242329]
-Hydroxamic acids as pharmacological agents., Muri EM, Nieto MJ, Sindelar RD, Williamson JS, Curr Med Chem. 2002 Sep;9(17):1631-53. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12171558 12171558]
-Structure determination and analysis of human neutrophil collagenase complexed with a hydroxamate inhibitor., Grams F, Crimmin M, Hinnes L, Huxley P, Pieper M, Tschesche H, Bode W, Biochemistry. 1995 Oct 31;34(43):14012-20. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/7577999 7577999]
-Biaryl ether retrohydroxamates as potent, long-lived, orally bioavailable MMP inhibitors., Michaelides MR, Dellaria JF, Gong J, Holms JH, Bouska JJ, Stacey J, Wada CK, Heyman HR, Curtin ML, Guo Y, Goodfellow CL, Elmore IB, Albert DH, Magoc TJ, Marcotte PA, Morgan DW, Davidsen SK, Bioorg Med Chem Lett. 2001 Jun 18;11(12):1553-6. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11412979 11412979]
 [[Category: Homo sapiens]]
-[[Category: Neutrophil collagenase]]
+[[Category: Large Structures]]
-[[Category: Single protein]]
+[[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]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 21:18:49 2008''