Structure of PDB 8w6p Chain A Binding Site BS02

Receptor Information
>8w6p Chain A (length=412) Species: 10090 (Mus musculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VGQFWHVTDLHLDPTYHITDDRTKVCASSKGANASNPGPFGDVLCDSPYQ
LILSAFDFIKNSGQEASFMIWTGDSPPHVPVPELSTGTVIKVITNMTMTV
QNLFPNLQVFPALGNHDYWPQDQLPIVTSKVYSAVADLWKPWLGEEAIST
LKKGGFYSQKVASNPGLRIISLNTNLYYGPNIMTLNKTDPANQFEWLENT
LNSSLWNKEKVYIIAHVPVGYLPYATDTPAIRQYYNEKLLDIFRRYSSVI
AGQFYGHTHRDSLMVLSDKNGNPLNSVFVAPAVTPVKGVLQKETNNPGVR
LFQYKPGDYTLLDMVQYYLNLTEANLKGESNWTLEYVLTQAYSVADLQPK
SLYALVQQFATKDSKQFLKYYHYYFVSYDSSATCDQHCKTLQVCAIMNLD
SMSYDDCLKQHL
Ligand information
Ligand IDYA4
InChIInChI=1S/C5H11O6PS/c6-3-1-10-4(5(3)7)2-11-12(8,9)13/h3-7H,1-2H2,(H2,8,9,13)/t3-,4+,5-/m0/s1
InChIKeyHBCHIJUQXWEATM-LMVFSUKVSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.7C1[C@@H]([C@@H]([C@H](O1)COP(=O)(O)S)O)O
CACTVS 3.385O[CH]1CO[CH](CO[P](O)(S)=O)[CH]1O
CACTVS 3.385O[C@H]1CO[C@H](CO[P](O)(S)=O)[C@H]1O
OpenEye OEToolkits 2.0.7C1C(C(C(O1)COP(=O)(O)S)O)O
FormulaC5 H11 O6 P S
Name[(2~{R},3~{S},4~{S})-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-sulfanyl-phosphinic acid
ChEMBL
DrugBank
ZINC
PDB chain8w6p Chain A Residue 501 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8w6p SMPDL3A is a cGAMP-degrading enzyme induced by LXR-mediated lipid metabolism to restrict cGAS-STING DNA sensing.
Resolution1.91 Å
Binding residue
(original residue number in PDB)
D107 H111 N148 H149 H290 H292
Binding residue
(residue number reindexed from 1)
D74 H78 N115 H116 H257 H259
Annotation score1
Enzymatic activity
Enzyme Commision number 3.1.4.-
3.6.1.15: nucleoside-triphosphate phosphatase.
Gene Ontology
Molecular Function
GO:0004767 sphingomyelin phosphodiesterase activity
GO:0008081 phosphoric diester hydrolase activity
GO:0008270 zinc ion binding
GO:0016787 hydrolase activity
GO:0016887 ATP hydrolysis activity
GO:0046872 metal ion binding
Biological Process
GO:0006685 sphingomyelin catabolic process
GO:0008150 biological_process
GO:0009143 nucleoside triphosphate catabolic process
GO:0160049 negative regulation of cGAS/STING signaling pathway
Cellular Component
GO:0005576 extracellular region
GO:0005615 extracellular space

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:8w6p, PDBe:8w6p, PDBj:8w6p
PDBsum8w6p
PubMed37890481
UniProtP70158|ASM3A_MOUSE Cyclic GMP-AMP phosphodiesterase SMPDL3A (Gene Name=Smpdl3a)

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