1zp5

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:12, 23 August 2023) (edit) (undo)
 
(14 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1zp5.gif|left|200px]]
 
-
{{Structure
+
==Crystal structure of the complex between MMP-8 and a N-hydroxyurea inhibitor==
-
|PDB= 1zp5 |SIZE=350|CAPTION= <scene name='initialview01'>1zp5</scene>, resolution 1.80&Aring;
+
<StructureSection load='1zp5' size='340' side='right'caption='[[1zp5]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND= <scene name='pdbligand=2NI:N-{2-[(4&#39;-CYANO-1,1&#39;-BIPHENYL-4-YL)OXY]ETHYL}-N&#39;-HYDROXY-N-METHYLUREA'>2NI</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>
+
<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>
-
|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Neutrophil_collagenase Neutrophil collagenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.34 3.4.24.34] </span>
+
</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>
-
|GENE= MMP8, CLG1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])
+
<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>
-
|DOMAIN=
+
<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>
-
|RELATEDENTRY=
+
</table>
-
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1zp5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zp5 OCA], [http://www.ebi.ac.uk/pdbsum/1zp5 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1zp5 RCSB]</span>
+
== 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>
-
==Overview==
+
==See Also==
-
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.
+
*[[Matrix metalloproteinase 3D structures|Matrix metalloproteinase 3D structures]]
-
 
+
== References ==
-
==About this Structure==
+
<references/>
-
1ZP5 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].
+
__TOC__
-
 
+
</StructureSection>
-
==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]
+
[[Category: Homo sapiens]]
[[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 Mon Mar 31 01:39:48 2008''
+

Current revision

Crystal structure of the complex between MMP-8 and a N-hydroxyurea inhibitor

PDB ID 1zp5

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1zp5"
Personal tools