This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.
Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.
3dpe
From Proteopedia
(Difference between revisions)
| Line 1: | Line 1: | ||
| + | |||
==Crystal structure of the complex between MMP-8 and a non-zinc chelating inhibitor== | ==Crystal structure of the complex between MMP-8 and a non-zinc chelating inhibitor== | ||
<StructureSection load='3dpe' size='340' side='right' caption='[[3dpe]], [[Resolution|resolution]] 1.60Å' scene=''> | <StructureSection load='3dpe' size='340' side='right' caption='[[3dpe]], [[Resolution|resolution]] 1.60Å' scene=''> | ||
| Line 4: | Line 5: | ||
<table><tr><td colspan='2'>[[3dpe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DPE FirstGlance]. <br> | <table><tr><td colspan='2'>[[3dpe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DPE FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AXB:N-{[2-(2-AMINO-3,4-DIOXOCYCLOBUT-1-EN-1-YL)-1,2,3,4-TETRAHYDROISOQUINOLIN-7-YL]METHYL}-4-OXO-3,5,6,8-TETRAHYDRO-4H-THIOPYRANO[4,3 4,5]THIENO[2,3-D]PYRIMIDINE-2-CARBOXAMIDE+7,7-DIOXIDE'>AXB</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AXB:N-{[2-(2-AMINO-3,4-DIOXOCYCLOBUT-1-EN-1-YL)-1,2,3,4-TETRAHYDROISOQUINOLIN-7-YL]METHYL}-4-OXO-3,5,6,8-TETRAHYDRO-4H-THIOPYRANO[4,3 4,5]THIENO[2,3-D]PYRIMIDINE-2-CARBOXAMIDE+7,7-DIOXIDE'>AXB</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | ||
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3dng|3dng]], [[3dpf|3dpf]]</td></tr> | + | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1xuc|1xuc]], [[1xud|1xud]], [[1xur|1xur]], [[3dng|3dng]], [[3dpf|3dpf]], [[2ow9|2ow9]], [[2ozr|2ozr]], [[1utt|1utt]], [[1utz|1utz]]</td></tr> |
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">MMP8, CLG1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr> | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">MMP8, CLG1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr> | ||
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><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='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><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='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=3dpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dpe OCA], [http://pdbe.org/3dpe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3dpe RCSB], [http://www.ebi.ac.uk/pdbsum/3dpe PDBsum]</span></td></tr> | + | <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=3dpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dpe OCA], [http://pdbe.org/3dpe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3dpe RCSB], [http://www.ebi.ac.uk/pdbsum/3dpe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3dpe ProSAT]</span></td></tr> |
</table> | </table> | ||
== Function == | == Function == | ||
| Line 15: | Line 16: | ||
Check<jmol> | Check<jmol> | ||
<jmolCheckbox> | <jmolCheckbox> | ||
| - | <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dp/3dpe_consurf.spt"</scriptWhenChecked> | + | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dp/3dpe_consurf.spt"</scriptWhenChecked> |
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | ||
<text>to colour the structure by Evolutionary Conservation</text> | <text>to colour the structure by Evolutionary Conservation</text> | ||
| Line 30: | Line 31: | ||
</div> | </div> | ||
<div class="pdbe-citations 3dpe" style="background-color:#fffaf0;"></div> | <div class="pdbe-citations 3dpe" style="background-color:#fffaf0;"></div> | ||
| - | |||
| - | ==See Also== | ||
| - | *[[Matrix metalloproteinase|Matrix metalloproteinase]] | ||
== References == | == References == | ||
<references/> | <references/> | ||
| Line 42: | Line 40: | ||
[[Category: Montanari, R]] | [[Category: Montanari, R]] | ||
[[Category: Pochetti, G]] | [[Category: Pochetti, G]] | ||
| + | [[Category: Calcium]] | ||
[[Category: Collagen degradation]] | [[Category: Collagen degradation]] | ||
[[Category: Extracellular matrix]] | [[Category: Extracellular matrix]] | ||
| Line 49: | Line 48: | ||
[[Category: Metalloprotease]] | [[Category: Metalloprotease]] | ||
[[Category: Non-zinc chelating inhibitor]] | [[Category: Non-zinc chelating inhibitor]] | ||
| + | [[Category: Polymorphism]] | ||
[[Category: Protease]] | [[Category: Protease]] | ||
[[Category: Secreted]] | [[Category: Secreted]] | ||
[[Category: Selective inhibition]] | [[Category: Selective inhibition]] | ||
| + | [[Category: Zinc]] | ||
[[Category: Zymogen]] | [[Category: Zymogen]] | ||
Revision as of 07:19, 13 December 2017
Crystal structure of the complex between MMP-8 and a non-zinc chelating inhibitor
| |||||||||||
Categories: Human | Neutrophil collagenase | Mazza, F | Montanari, R | Pochetti, G | Calcium | Collagen degradation | Extracellular matrix | Glycoprotein | Hydrolase | Metal-binding | Metalloprotease | Non-zinc chelating inhibitor | Polymorphism | Protease | Secreted | Selective inhibition | Zinc | Zymogen
