4jqw

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{{STRUCTURE_4jqw| PDB=4jqw | SCENE= }}
 
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===Crystal Structure of a Complex of NOD1 CARD and Ubiquitin===
 
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==Function==
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==Crystal Structure of a Complex of NOD1 CARD and Ubiquitin==
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[[http://www.uniprot.org/uniprot/NOD1_HUMAN NOD1_HUMAN]] Enhances caspase-9-mediated apoptosis. Induces NF-kappa-B activity via RIPK2 and IKK-gamma. Confers responsiveness to intracellular bacterial lipopolysaccharides (LPS). Forms an intracellular sensing system along with ARHGEF2 for the detection of microbial effectors during cell invasion by pathogens. Required for RHOA and RIPK2 dependent NF-kappa-B signaling pathway activation upon S.flexneri cell invasion. Involved not only in sensing peptidoglycan (PGN)-derived muropeptides but also in the activation of NF-kappa-B by Shigella effector proteins IpgB2 and OspB. Recruits NLRP10 to the cell membrane following bacterial infection.<ref>PMID:11058605</ref> <ref>PMID:19043560</ref> <ref>PMID:22672233</ref> <ref>PMID:17054981</ref> [[http://www.uniprot.org/uniprot/UBC_HUMAN UBC_HUMAN]] Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, DNA-damage responses as well as in signaling processes leading to activation of the transcription factor NF-kappa-B. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.<ref>PMID:16543144</ref> <ref>PMID:19754430</ref>
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<StructureSection load='4jqw' size='340' side='right'caption='[[4jqw]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[4jqw]] is a 2 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=4JQW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4JQW FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.9&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CAS:S-(DIMETHYLARSENIC)CYSTEINE'>CAS</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4jqw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jqw OCA], [https://pdbe.org/4jqw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4jqw RCSB], [https://www.ebi.ac.uk/pdbsum/4jqw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4jqw ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/NOD1_HUMAN NOD1_HUMAN] Enhances caspase-9-mediated apoptosis. Induces NF-kappa-B activity via RIPK2 and IKK-gamma. Confers responsiveness to intracellular bacterial lipopolysaccharides (LPS). Forms an intracellular sensing system along with ARHGEF2 for the detection of microbial effectors during cell invasion by pathogens. Required for RHOA and RIPK2 dependent NF-kappa-B signaling pathway activation upon S.flexneri cell invasion. Involved not only in sensing peptidoglycan (PGN)-derived muropeptides but also in the activation of NF-kappa-B by Shigella effector proteins IpgB2 and OspB. Recruits NLRP10 to the cell membrane following bacterial infection.<ref>PMID:11058605</ref> <ref>PMID:19043560</ref> <ref>PMID:22672233</ref> <ref>PMID:17054981</ref>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The Caspase Recruitment Domain (CARD) from the innate immune receptor NOD1 was crystallized with Ubiquitin (Ub). NOD1 CARD was present as a helix-swapped homodimer similar to other structures of NOD1 CARD, and Ub monomers formed a homodimer similar in conformation to Lys48-linked di-Ub. The interaction between NOD1 CARD and Ub in the crystal was mediated by novel binding sites on each molecule. Comparisons of these sites to previously identified interaction surfaces on both molecules were made along with discussion of their potential functional significance.
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==About this Structure==
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Crystal structure of a complex of NOD1 CARD and ubiquitin.,Ver Heul AM, Gakhar L, Piper RC, Subramanian R PLoS One. 2014 Aug 15;9(8):e104017. doi: 10.1371/journal.pone.0104017., eCollection 2014. PMID:25127239<ref>PMID:25127239</ref>
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[[4jqw]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JQW OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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<references group="xtra"/><references/>
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</div>
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[[Category: Gakhar, L.]]
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<div class="pdbe-citations 4jqw" style="background-color:#fffaf0;"></div>
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[[Category: Heul, A M.Ver.]]
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[[Category: Piper, R C.]]
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==See Also==
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[[Category: Ramaswamy, S.]]
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*[[3D structures of ubiquitin|3D structures of ubiquitin]]
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[[Category: Apoptosis-signalling protein complex]]
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== References ==
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[[Category: Atg16l]]
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<references/>
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[[Category: Death domain-like fold]]
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__TOC__
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[[Category: Innate immunity]]
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</StructureSection>
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[[Category: Rip2]]
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[[Category: Homo sapiens]]
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[[Category: S-dimethylarsenic]]
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[[Category: Large Structures]]
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[[Category: Gakhar L]]
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[[Category: Piper RC]]
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[[Category: Ramaswamy S]]
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[[Category: Ver Heul AM]]

Current revision

Crystal Structure of a Complex of NOD1 CARD and Ubiquitin

PDB ID 4jqw

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