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5gpp

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Revision as of 11:38, 2 August 2023

Crystal structure of zebrafish ASC PYD domain

Structural highlights

5gpp is a 2 chain structure with sequence from Danio rerio and Escherichia coli O157:H7. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2Å
Ligands:	, , ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

MALE_ECOLI Involved in the high-affinity maltose membrane transport system MalEFGK. Initial receptor for the active transport of and chemotaxis toward maltooligosaccharides.ASC_DANRE Functions as key mediator in apoptosis and inflammation (PubMed:12464617, PubMed:30150286). Promotes caspase-mediated apoptosis (PubMed:12464617). Induces proteolytic processing of caspa and caspa-dependent apoptosis (PubMed:12464617). Involved in innate immune response by acting as an integral adapter in the assembly of various inflammasomes which recruit and activate caspase-1 leading to processing and secretion of pro-inflammatory cytokines (PubMed:30150286). Caspase-1-dependent inflammation leads to macrophage pyroptosis, a form of cell death (By similarity). The function as activating adapter in different types of inflammasomes is mediated by the pyrin and CARD domains and their homotypic interactions (PubMed:30150286). Clustered PYCARD nucleates the formation of caspase-1 filaments through the interaction of their respective CARD domains, acting as a platform for of caspase-1 polymerization (By similarity). Also involved in transcriptional activation of cytokines and chemokines independent of the inflammasome (By similarity).[UniProtKB:Q9ULZ3]^[1] ^[2]

Publication Abstract from PubMed

The zebrafish genome encodes homologs for most of the proteins involved in inflammatory pathways; however, the molecular components and activation mechanisms of fish inflammasomes are largely unknown. ASC [apoptosis-associated speck-like protein containing a caspase-recruitment domain (CARD)] is the only adaptor involved in the formation of multiple types of inflammasomes. Here, we demonstrate that zASC is also involved in inflammasome activation in zebrafish. When overexpressed in vitro and in vivo in zebrafish, both the zASC and zASC pyrin domain (PYD) proteins form speck and filament structures. Importantly, the crystal structures of the N-terminal PYD and C-terminal CARD of zebrafish ASC were determined independently as two separate entities fused to maltose-binding protein. Structure-guided mutagenesis revealed the functional relevance of the PYD hydrophilic surface found in the crystal lattice. Finally, the fish caspase-1 homolog Caspy, but not the caspase-4/11 homolog Caspy2, interacts with zASC through homotypic PYD-PYD interactions, which differ from those in mammals. These observations establish the conserved and unique structural/functional features of the zASC-dependent inflammasome pathway. DATABASE: Structural data are available in the PDB under accession numbers 5GPP and 5GPQ.

Functional and structural characterization of zebrafish ASC.,Li Y, Huang Y, Cao X, Yin X, Jin X, Liu S, Jiang J, Jiang W, Xiao TS, Zhou R, Cai G, Hu B, Jin T FEBS J. 2018 Jul;285(14):2691-2707. doi: 10.1111/febs.14514. Epub 2018 Jun 14. PMID:29791979^[3]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Masumoto J, Zhou W, Chen FF, Su F, Kuwada JY, Hidaka E, Katsuyama T, Sagara J, Taniguchi S, Ngo-Hazelett P, Postlethwait JH, Núñez G, Inohara N. Caspy, a zebrafish caspase, activated by ASC oligomerization is required for pharyngeal arch development. J Biol Chem. 2003 Feb 7;278(6):4268-76. PMID:12464617 doi:10.1074/jbc.M203944200
↑ Li JY, Gao K, Shao T, Fan DD, Hu CB, Sun CC, Dong WR, Lin AF, Xiang LX, Shao JZ. Characterization of an NLRP1 Inflammasome from Zebrafish Reveals a Unique Sequential Activation Mechanism Underlying Inflammatory Caspases in Ancient Vertebrates. J Immunol. 2018 Oct 1;201(7):1946-1966. PMID:30150286 doi:10.4049/jimmunol.1800498
↑ Li Y, Huang Y, Cao X, Yin X, Jin X, Liu S, Jiang J, Jiang W, Xiao TS, Zhou R, Cai G, Hu B, Jin T. Functional and structural characterization of zebrafish ASC. FEBS J. 2018 Jul;285(14):2691-2707. doi: 10.1111/febs.14514. Epub 2018 Jun 14. PMID:29791979 doi:http://dx.doi.org/10.1111/febs.14514

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5gpp"

Categories: Danio rerio | Escherichia coli O157:H7 | Large Structures | Jin T | Li Y

@@ Line 1: / Line 1: @@
 ==Crystal structure of zebrafish ASC PYD domain==
-<StructureSection load='5gpp' size='340' side='right' caption='[[5gpp]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
+<StructureSection load='5gpp' size='340' side='right'caption='[[5gpp]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5gpp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Brachidanio_rerio Brachidanio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GPP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GPP FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5gpp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Danio_rerio Danio rerio] and [https://en.wikipedia.org/wiki/Escherichia_coli_O157:H7 Escherichia coli O157:H7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GPP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5GPP FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MAL:MALTOSE'>MAL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5gpq|5gpq]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=PRD_900001:alpha-maltose'>PRD_900001</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pycard ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7955 Brachidanio rerio])</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=5gpp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gpp OCA], [https://pdbe.org/5gpp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5gpp RCSB], [https://www.ebi.ac.uk/pdbsum/5gpp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5gpp ProSAT]</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=5gpp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gpp OCA], [http://pdbe.org/5gpp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gpp RCSB], [http://www.ebi.ac.uk/pdbsum/5gpp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gpp ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/MALE_ECO57 MALE_ECO57]] Involved in the high-affinity maltose membrane transport system MalEFGK. Initial receptor for the active transport of and chemotaxis toward maltooligosaccharides (By similarity).
+[https://www.uniprot.org/uniprot/MALE_ECOLI MALE_ECOLI] Involved in the high-affinity maltose membrane transport system MalEFGK. Initial receptor for the active transport of and chemotaxis toward maltooligosaccharides.[https://www.uniprot.org/uniprot/ASC_DANRE ASC_DANRE] Functions as key mediator in apoptosis and inflammation (PubMed:12464617, PubMed:30150286). Promotes caspase-mediated apoptosis (PubMed:12464617). Induces proteolytic processing of caspa and caspa-dependent apoptosis (PubMed:12464617). Involved in innate immune response by acting as an integral adapter in the assembly of various inflammasomes which recruit and activate caspase-1 leading to processing and secretion of pro-inflammatory cytokines (PubMed:30150286). Caspase-1-dependent inflammation leads to macrophage pyroptosis, a form of cell death (By similarity). The function as activating adapter in different types of inflammasomes is mediated by the pyrin and CARD domains and their homotypic interactions (PubMed:30150286). Clustered PYCARD nucleates the formation of caspase-1 filaments through the interaction of their respective CARD domains, acting as a platform for of caspase-1 polymerization (By similarity). Also involved in transcriptional activation of cytokines and chemokines independent of the inflammasome (By similarity).[UniProtKB:Q9ULZ3]<ref>PMID:12464617</ref> <ref>PMID:30150286</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 24: / Line 23: @@
 __TOC__
 </StructureSection>
-[[Category: Brachidanio rerio]]
+[[Category: Danio rerio]]
-[[Category: Jin, T]]
+[[Category: Escherichia coli O157:H7]]
-[[Category: Li, Y]]
+[[Category: Large Structures]]
-[[Category: Death fold]]
+[[Category: Jin T]]
-[[Category: Immune system]]
+[[Category: Li Y]]
-[[Category: Innate immune signaling pathway]]

5gpp

From Proteopedia

Revision as of 11:38, 2 August 2023

Crystal structure of zebrafish ASC PYD domain

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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