6x6c
From Proteopedia
(Difference between revisions)
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| - | ==== | + | ==Cryo-EM structure of NLRP1-DPP9-VbP complex== |
| - | <StructureSection load='6x6c' size='340' side='right'caption='[[6x6c]]' scene=''> | + | <StructureSection load='6x6c' size='340' side='right'caption='[[6x6c]], [[Resolution|resolution]] 2.90Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6x6c]] is a 4 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=6X6C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6X6C FirstGlance]. <br> |
| - | </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=6x6c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6x6c OCA], [https://pdbe.org/6x6c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6x6c RCSB], [https://www.ebi.ac.uk/pdbsum/6x6c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6x6c ProSAT]</span></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 2.9Å</td></tr> |
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GK2:[(2~{R})-1-[(2~{R})-2-azanyl-3-methyl-butanoyl]pyrrolidin-2-yl]boronic+acid'>GK2</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=6x6c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6x6c OCA], [https://pdbe.org/6x6c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6x6c RCSB], [https://www.ebi.ac.uk/pdbsum/6x6c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6x6c ProSAT]</span></td></tr> | ||
</table> | </table> | ||
| + | == Disease == | ||
| + | [https://www.uniprot.org/uniprot/DPP9_HUMAN DPP9_HUMAN] Idiopathic pulmonary fibrosis. | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/DPP9_HUMAN DPP9_HUMAN] Dipeptidyl peptidase that cleaves off N-terminal dipeptides from proteins having a Pro or Ala residue at position 2. | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Nucleotide-binding domain and leucine-rich repeat pyrin-domain containing protein 1 (NLRP1) is an inflammasome sensor that mediates the activation of caspase-1 to induce cytokine maturation and pyroptosis(1-4). Gain-of-function mutations of NLRP1 cause severe inflammatory diseases of the skin(4-6). NLRP1 contains a function-to-find domain that auto-proteolyses into noncovalently associated subdomains(7-9), and proteasomal degradation of the repressive N-terminal fragment of NLRP1 releases its inflammatory C-terminal fragment (NLRP1 CT)(10,11). Cytosolic dipeptidyl peptidases 8 and 9 (hereafter, DPP8/DPP9) both interact with NLRP1, and small-molecule inhibitors of DPP8/DPP9 activate NLRP1 by mechanisms that are currently unclear(10,12-14). Here we report cryo-electron microscopy structures of the human NLRP1-DPP9 complex alone and with Val-boroPro (VbP), an inhibitor of DPP8/DPP9. The structures reveal a ternary complex that comprises DPP9, full-length NLRP1 and the NLRPT CT. The binding of the NLRP1 CT to DPP9 requires full-length NLRP1, which suggests that NLRP1 activation is regulated by the ratio of NLRP1 CT to full-length NLRP1. Activation of the inflammasome by ectopic expression of the NLRP1 CT is consistently rescued by co-expression of autoproteolysis-deficient full-length NLRP1. The N terminus of the NLRP1 CT inserts into the DPP9 active site, and VbP disrupts this interaction. Thus, VbP weakens the NLRP1-DPP9 interaction and accelerates degradation of the N-terminal fragment(10) to induce inflammasome activation. Overall, these data demonstrate that DPP9 quenches low levels of NLRP1 CT and thus serves as a checkpoint for activation of the NLRP1 inflammasome. | ||
| + | |||
| + | DPP9 sequesters the C terminus of NLRP1 to repress inflammasome activation.,Hollingsworth LR, Sharif H, Griswold AR, Fontana P, Mintseris J, Dagbay KB, Paulo JA, Gygi SP, Bachovchin DA, Wu H Nature. 2021 Apr;592(7856):778-783. doi: 10.1038/s41586-021-03350-4. Epub 2021 , Mar 17. PMID:33731932<ref>PMID:33731932</ref> | ||
| + | |||
| + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 6x6c" style="background-color:#fffaf0;"></div> | ||
| + | |||
| + | ==See Also== | ||
| + | *[[Dipeptidyl peptidase 3D structures|Dipeptidyl peptidase 3D structures]] | ||
| + | *[[Pyrin domain|Pyrin domain]] | ||
| + | == References == | ||
| + | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| + | [[Category: Homo sapiens]] | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
| - | [[Category: | + | [[Category: Bachovchin DA]] |
| + | [[Category: Dagbay KB]] | ||
| + | [[Category: Fontana P]] | ||
| + | [[Category: Griswold AR]] | ||
| + | [[Category: Gygi SP]] | ||
| + | [[Category: Hollingsworth LR]] | ||
| + | [[Category: Mintseris J]] | ||
| + | [[Category: Paulo JA]] | ||
| + | [[Category: Sharif H]] | ||
| + | [[Category: Wu H]] | ||
Current revision
Cryo-EM structure of NLRP1-DPP9-VbP complex
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Categories: Homo sapiens | Large Structures | Bachovchin DA | Dagbay KB | Fontana P | Griswold AR | Gygi SP | Hollingsworth LR | Mintseris J | Paulo JA | Sharif H | Wu H
