1nqc

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:40, 6 November 2024) (edit) (undo)
 
(17 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1nqc.jpg|left|200px]]<br /><applet load="1nqc" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1nqc, resolution 1.8&Aring;" />
 
-
'''Crystal structures of Cathepsin S inhibitor complexes'''<br />
 
-
==Overview==
+
==Crystal structures of Cathepsin S inhibitor complexes==
-
Cathepsin S, a lysosomal cysteine protease of the papain superfamily, has, been implicated in the preparation of MHC class II alphabeta-heterodimers, for antigen presentation to CD4+ T lymphocytes and is considered a, potential target for autoimmune-disease therapy. Selective inhibition of, this enzyme may be therapeutically useful for attenuating the hyperimmune, responses in a number of disorders. We determined the three-dimensional, crystal structures of human cathepsin S in complex with potent covalent, inhibitors, the aldehyde inhibitor, 4-morpholinecarbonyl-Phe-(S-benzyl)Cys-Psi(CH=O), and the vinyl sulfone, irreversible inhibitor, 4-morpholinecarbonyl-Leu-Hph-Psi(CH=CH-SO(2)-phenyl) at resolutions of 1.8, and 2.0 A, respectively. In the structure of the cathepsin S-aldehyde, complex, the tetrahedral thiohemiacetal adduct favors the S-configuration, in which the oxygen atom interacts with the imidazole group of the active, site His164 rather than with the oxyanion hole. The present structures, provide a detailed map of noncovalent intermolecular interactions, established in the substrate-binding subsites S3 to S1' of cathepsin S. In, the S2 pocket, which is the binding affinity hot spot of cathepsin S, the, Phe211 side chain can assume two stable conformations that accommodate, either the P2-Leu or a bulkier P2-Phe side chain. This structural, plasticity of the S2 pocket in cathepsin S explains the selective, inhibition of cathepsin S over cathepsin K afforded by inhibitors with the, P2-Phe side chain. Comparison with the structures of cathepsins K, V, and, L allows delineation of local intermolecular contacts that are unique to, cathepsin S.
+
<StructureSection load='1nqc' size='340' side='right'caption='[[1nqc]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1nqc]] 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=1NQC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NQC FirstGlance]. <br>
 +
</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=C4P:N-[(1R)-2-(BENZYLSULFANYL)-1-FORMYLETHYL]-N-(MORPHOLIN-4-YLCARBONYL)-L-PHENYLALANINAMIDE'>C4P</scene></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=1nqc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nqc OCA], [https://pdbe.org/1nqc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1nqc RCSB], [https://www.ebi.ac.uk/pdbsum/1nqc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1nqc ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/CATS_HUMAN CATS_HUMAN] Thiol protease. Key protease responsible for the removal of the invariant chain from MHC class II molecules. The bond-specificity of this proteinase is in part similar to the specificities of cathepsin L and cathepsin N.
 +
== 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/nq/1nqc_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1nqc ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Cathepsin S, a lysosomal cysteine protease of the papain superfamily, has been implicated in the preparation of MHC class II alphabeta-heterodimers for antigen presentation to CD4+ T lymphocytes and is considered a potential target for autoimmune-disease therapy. Selective inhibition of this enzyme may be therapeutically useful for attenuating the hyperimmune responses in a number of disorders. We determined the three-dimensional crystal structures of human cathepsin S in complex with potent covalent inhibitors, the aldehyde inhibitor 4-morpholinecarbonyl-Phe-(S-benzyl)Cys-Psi(CH=O), and the vinyl sulfone irreversible inhibitor 4-morpholinecarbonyl-Leu-Hph-Psi(CH=CH-SO(2)-phenyl) at resolutions of 1.8 and 2.0 A, respectively. In the structure of the cathepsin S-aldehyde complex, the tetrahedral thiohemiacetal adduct favors the S-configuration, in which the oxygen atom interacts with the imidazole group of the active site His164 rather than with the oxyanion hole. The present structures provide a detailed map of noncovalent intermolecular interactions established in the substrate-binding subsites S3 to S1' of cathepsin S. In the S2 pocket, which is the binding affinity hot spot of cathepsin S, the Phe211 side chain can assume two stable conformations that accommodate either the P2-Leu or a bulkier P2-Phe side chain. This structural plasticity of the S2 pocket in cathepsin S explains the selective inhibition of cathepsin S over cathepsin K afforded by inhibitors with the P2-Phe side chain. Comparison with the structures of cathepsins K, V, and L allows delineation of local intermolecular contacts that are unique to cathepsin S.
-
==About this Structure==
+
Specificity determinants of human cathepsin s revealed by crystal structures of complexes.,Pauly TA, Sulea T, Ammirati M, Sivaraman J, Danley DE, Griffor MC, Kamath AV, Wang IK, Laird ER, Seddon AP, Menard R, Cygler M, Rath VL Biochemistry. 2003 Mar 25;42(11):3203-13. PMID:12641451<ref>PMID:12641451</ref>
-
1NQC is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with <scene name='pdbligand=C4P:'>C4P</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Cathepsin_S Cathepsin S], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.22.27 3.4.22.27] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NQC OCA].
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
Specificity determinants of human cathepsin s revealed by crystal structures of complexes., Pauly TA, Sulea T, Ammirati M, Sivaraman J, Danley DE, Griffor MC, Kamath AV, Wang IK, Laird ER, Seddon AP, Menard R, Cygler M, Rath VL, Biochemistry. 2003 Mar 25;42(11):3203-13. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12641451 12641451]
+
</div>
-
[[Category: Cathepsin S]]
+
<div class="pdbe-citations 1nqc" style="background-color:#fffaf0;"></div>
-
[[Category: Homo sapiens]]
+
-
[[Category: Single protein]]
+
-
[[Category: Ammirati, M.]]
+
-
[[Category: Cygler, M.]]
+
-
[[Category: Danley, D.E.]]
+
-
[[Category: Griffor, M.C.]]
+
-
[[Category: Kamath, A.V.]]
+
-
[[Category: Laird, E.R.]]
+
-
[[Category: Menard, R.]]
+
-
[[Category: Pauly, T.A.]]
+
-
[[Category: Rath, V.L.]]
+
-
[[Category: Sivaraman, J.]]
+
-
[[Category: Sulea, T.]]
+
-
[[Category: Wang, I.K.]]
+
-
[[Category: C4P]]
+
-
[[Category: antigen presentation]]
+
-
[[Category: binding specificity]]
+
-
[[Category: cysteine proteases]]
+
-
[[Category: inhibitor complexes]]
+
-
[[Category: structural plasticity]]
+
-
[[Category: structure-based design]]
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri Feb 15 16:30:27 2008''
+
==See Also==
 +
*[[Cathepsin 3D structures|Cathepsin 3D structures]]
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Homo sapiens]]
 +
[[Category: Large Structures]]
 +
[[Category: Ammirati M]]
 +
[[Category: Cygler M]]
 +
[[Category: Danley DE]]
 +
[[Category: Griffor MC]]
 +
[[Category: Kamath AV]]
 +
[[Category: Laird ER]]
 +
[[Category: Menard R]]
 +
[[Category: Pauly TA]]
 +
[[Category: Rath VL]]
 +
[[Category: Sivaraman J]]
 +
[[Category: Sulea T]]
 +
[[Category: Wang IK]]

Current revision

Crystal structures of Cathepsin S inhibitor complexes

PDB ID 1nqc

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/1nqc"
Personal tools