8v07: Difference between revisions

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'''Unreleased structure'''


The entry 8v07 is ON HOLD  until Paper Publication
==Crystal structure of mouse PLD3 co-crystallized with 5'Pi-ssDNA for 30 days==
 
<StructureSection load='8v07' size='340' side='right'caption='[[8v07]], [[Resolution|resolution]] 1.99&Aring;' scene=''>
Authors: Yuan, M., Wilson, I.A.
== Structural highlights ==
 
<table><tr><td colspan='2'>[[8v07]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8V07 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8V07 FirstGlance]. <br>
Description: Crystal structure of mouse PLD3 co-crystallized with 5''Pi-ssDNA for 30 days
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.99&#8491;</td></tr>
[[Category: Unreleased Structures]]
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
[[Category: Wilson, I.A]]
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=8v07 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8v07 OCA], [https://pdbe.org/8v07 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8v07 RCSB], [https://www.ebi.ac.uk/pdbsum/8v07 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8v07 ProSAT]</span></td></tr>
[[Category: Yuan, M]]
</table>
== Function ==
[https://www.uniprot.org/uniprot/PLD3_MOUSE PLD3_MOUSE] 5'->3' DNA exonuclease which digests single-stranded DNA (ssDNA) (PubMed:30111894). Regulates inflammatory cytokine responses via the degradation of nucleic acids, by reducing the concentration of ssDNA able to stimulate TLR9, a nucleotide-sensing receptor in collaboration with PLD4 (PubMed:30111894). May be important in myotube formation. Plays a role in lysosomal homeostasis. Involved in the regulation of endosomal protein sorting (By similarity).[UniProtKB:Q8IV08]<ref>PMID:30111894</ref>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Mus musculus]]
[[Category: Wilson IA]]
[[Category: Yuan M]]

Latest revision as of 16:20, 13 March 2024

Crystal structure of mouse PLD3 co-crystallized with 5'Pi-ssDNA for 30 daysCrystal structure of mouse PLD3 co-crystallized with 5'Pi-ssDNA for 30 days

Structural highlights

8v07 is a 4 chain structure with sequence from Mus musculus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.99Å
Ligands:, , , , , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

PLD3_MOUSE 5'->3' DNA exonuclease which digests single-stranded DNA (ssDNA) (PubMed:30111894). Regulates inflammatory cytokine responses via the degradation of nucleic acids, by reducing the concentration of ssDNA able to stimulate TLR9, a nucleotide-sensing receptor in collaboration with PLD4 (PubMed:30111894). May be important in myotube formation. Plays a role in lysosomal homeostasis. Involved in the regulation of endosomal protein sorting (By similarity).[UniProtKB:Q8IV08][1]

References

  1. ↑ Gavin AL, Huang D, Huber C, Mårtensson A, Tardif V, Skog PD, Blane TR, Thinnes TC, Osborn K, Chong HS, Kargaran F, Kimm P, Zeitjian A, Sielski RL, Briggs M, Schulz SR, Zarpellon A, Cravatt B, Pang ES, Teijaro J, de la Torre JC, O'Keeffe M, Hochrein H, Damme M, Teyton L, Lawson BR, Nemazee D. PLD3 and PLD4 are single-stranded acid exonucleases that regulate endosomal nucleic-acid sensing. Nat Immunol. 2018 Sep;19(9):942-953. PMID:30111894 doi:10.1038/s41590-018-0179-y

8v07, resolution 1.99Å

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