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.


3s3r

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (12:45, 14 March 2024) (edit) (undo)
 
(One intermediate revision not shown.)
Line 1: Line 1:
==Structure of cathepsin B1 from Schistosoma mansoni in complex with K11777 inhibitor==
==Structure of cathepsin B1 from Schistosoma mansoni in complex with K11777 inhibitor==
-
<StructureSection load='3s3r' size='340' side='right' caption='[[3s3r]], [[Resolution|resolution]] 2.64&Aring;' scene=''>
+
<StructureSection load='3s3r' size='340' side='right'caption='[[3s3r]], [[Resolution|resolution]] 2.64&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[3s3r]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Blood_fluke Blood fluke]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3S3R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3S3R FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[3s3r]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Schistosoma_mansoni Schistosoma mansoni]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3S3R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3S3R FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0IW:NALPHA-[(4-METHYLPIPERAZIN-1-YL)CARBONYL]-N-[(3S)-1-PHENYL-5-(PHENYLSULFONYL)PENTAN-3-YL]-L-PHENYLALANINAMIDE'>0IW</scene></td></tr>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.64&#8491;</td></tr>
-
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3qsd|3qsd]], [[3s3q|3s3q]]</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0IW:NALPHA-[(4-METHYLPIPERAZIN-1-YL)CARBONYL]-N-[(3S)-1-PHENYL-5-(PHENYLSULFONYL)PENTAN-3-YL]-L-PHENYLALANINAMIDE'>0IW</scene></td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">cb1.1, Smp_103610 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6183 Blood fluke])</td></tr>
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3s3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3s3r OCA], [https://pdbe.org/3s3r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3s3r RCSB], [https://www.ebi.ac.uk/pdbsum/3s3r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3s3r ProSAT]</span></td></tr>
-
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cathepsin_B Cathepsin B], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.22.1 3.4.22.1] </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=3s3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3s3r OCA], [http://pdbe.org/3s3r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3s3r RCSB], [http://www.ebi.ac.uk/pdbsum/3s3r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3s3r ProSAT]</span></td></tr>
+
</table>
</table>
-
<div style="background-color:#fffaf0;">
+
== Function ==
-
== Publication Abstract from PubMed ==
+
[https://www.uniprot.org/uniprot/Q8MNY2_SCHMA Q8MNY2_SCHMA]
-
Schistosomiasis caused by a parasitic blood fluke of the genus Schistosoma afflicts over 200 million people worldwide. Schistosoma mansoni cathepsin B1 (SmCB1) is a gut-associated peptidase that digests host blood proteins as a source of nutrients. It is under investigation as a drug target. To further this goal, we report three crystal structures of SmCB1 complexed with peptidomimetic inhibitors as follows: the epoxide CA074 at 1.3 A resolution and the vinyl sulfones K11017 and K11777 at 1.8 and 2.5 A resolutions, respectively. Interactions of the inhibitors with the subsites of the active-site cleft were evaluated by quantum chemical calculations. These data and inhibition profiling with a panel of vinyl sulfone derivatives identify key binding interactions and provide insight into the specificity of SmCB1 inhibition. Furthermore, hydrolysis profiling of SmCB1 using synthetic peptides and the natural substrate hemoglobin revealed that carboxydipeptidase activity predominates over endopeptidolysis, thereby demonstrating the contribution of the occluding loop that restricts access to the active-site cleft. Critically, the severity of phenotypes induced in the parasite by vinyl sulfone inhibitors correlated with enzyme inhibition, providing support that SmCB1 is a valuable drug target. The present structure and inhibitor interaction data provide a footing for the rational design of anti-schistosomal inhibitors.
+
-
 
+
-
Structural Basis for Inhibition of Cathepsin B Drug Target from the Human Blood Fluke, Schistosoma mansoni.,Jilkova A, Rezacova P, Lepsik M, Horn M, Vachova J, Fanfrlik J, Brynda J, McKerrow JH, Caffrey CR, Mares M J Biol Chem. 2011 Oct 14;286(41):35770-81. Epub 2011 Aug 10. PMID:21832058<ref>PMID:21832058</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
-
<div class="pdbe-citations 3s3r" style="background-color:#fffaf0;"></div>
+
==See Also==
==See Also==
-
*[[Cathepsin|Cathepsin]]
+
*[[Cathepsin 3D structures|Cathepsin 3D structures]]
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Blood fluke]]
+
[[Category: Large Structures]]
-
[[Category: Cathepsin B]]
+
[[Category: Schistosoma mansoni]]
-
[[Category: Brynda, J]]
+
[[Category: Brynda J]]
-
[[Category: Horn, M]]
+
[[Category: Horn M]]
-
[[Category: Jilkova, A]]
+
[[Category: Jilkova A]]
-
[[Category: Mares, M]]
+
[[Category: Mares M]]
-
[[Category: Rezacova, P]]
+
[[Category: Rezacova P]]
-
[[Category: Digestive tract]]
+
-
[[Category: Hydrolase-hydrolase inhibitor complex]]
+
-
[[Category: Peptidase]]
+

Current revision

Structure of cathepsin B1 from Schistosoma mansoni in complex with K11777 inhibitor

PDB ID 3s3r

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/3s3r"
Personal tools