Structure of PDB 5fi9 Chain B

Receptor sequence
>5fi9B (length=529) Species: 10090 (Mus musculus) [Search protein sequence]
KLNLTCPACKVLFTALNHGLKKEPNVARVGSVAIKICKMLNIAPLDVCQS
AVHLFEDDVVEVWTRSVLSPSEACGLLLGSSCGHWDIFSTWNISLPSVPK
PPPKPPSPPAPGAPVSRVLFLTDLHWDHEYLEGTDPYCADPLCCRRGSGW
PPNSQKGAGFWGEYSKCDLPLRTLESLLKGLGPAGPFEMVYWTGDIPAHD
VWQQSRQDQLRALTTITDLVRKFLGPVPVYPAVGNHESTPVNGFPPPFIK
GNQSSQWLYEAMAKAWEPWLPADALHTLRIGGFYALTPRPGLRLISLNMN
FCSRENFWLLINSTDPAGQLQWLVEELQAAENRGDKVHIIGHIPPGHCLK
SWSWNYYKIIARYENTLAGQFFGHTHVDEFEIFYDEETLSRPLAVAFLAP
SATTFINLNPGYRVYQIDGNYPGSSHVVLDHETYILNLTQANAAGGTPSW
KRLYRARETYGLPDAMPASWHNLVYRMRDDEQLFQTFWFLYHKGHPPSEP
CGTPCRLATLCAQLSARADSPALCRHLMP
3D structure
PDB5fi9 Crystal structure of mammalian acid sphingomyelinase.
ChainB
Resolution2.543 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.1.4.12: sphingomyelin phosphodiesterase.
3.1.4.3: phospholipase C.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 FUC B N122 P125 N41 P44
BS02 ZN B D204 H206 D276 H457 D123 H125 D195 H376
BS03 ZN B D276 N316 H423 H455 D195 N235 H342 H374
BS04 NT8 B H206 D276 H280 N316 H317 H455 H457 H125 D195 H199 N235 H236 H374 H376
Gene Ontology
Molecular Function
GO:0004767 sphingomyelin phosphodiesterase activity
GO:0008270 zinc ion binding
GO:0016787 hydrolase activity
GO:0016798 hydrolase activity, acting on glycosyl bonds
GO:0034480 phosphatidylcholine phospholipase C activity
GO:0046872 metal ion binding
GO:0061750 acid sphingomyelin phosphodiesterase activity
Biological Process
GO:0001778 plasma membrane repair
GO:0006629 lipid metabolic process
GO:0006672 ceramide metabolic process
GO:0006685 sphingomyelin catabolic process
GO:0008203 cholesterol metabolic process
GO:0009410 response to xenobiotic stimulus
GO:0009615 response to virus
GO:0010212 response to ionizing radiation
GO:0023021 termination of signal transduction
GO:0034340 response to type I interferon
GO:0034612 response to tumor necrosis factor
GO:0034644 cellular response to UV
GO:0042060 wound healing
GO:0042220 response to cocaine
GO:0043065 positive regulation of apoptotic process
GO:0043407 negative regulation of MAP kinase activity
GO:0045807 positive regulation of endocytosis
GO:0046513 ceramide biosynthetic process
GO:0046598 positive regulation of viral entry into host cell
GO:0046718 symbiont entry into host cell
GO:0070555 response to interleukin-1
GO:0071277 cellular response to calcium ion
Cellular Component
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005764 lysosome
GO:0005768 endosome
GO:0005811 lipid droplet
GO:0005886 plasma membrane
GO:0036019 endolysosome
GO:0042599 lamellar body

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5fi9, PDBe:5fi9, PDBj:5fi9
PDBsum5fi9
PubMed27435900
UniProtQ04519|ASM_MOUSE Sphingomyelin phosphodiesterase (Gene Name=Smpd1)

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