Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
AGDPD_2e2f9rA1 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: GDPD_2ECOD (1.6)
BGDPD_2e2f9rB1 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: GDPD_2ECOD (1.6)
CGDPD_2e2f9rC1 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: GDPD_2ECOD (1.6)
DGDPD_2e2f9rD1 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: GDPD_2ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

ChainsEnzyme NameDescriptionCatalytic Residues
sphingomyelin phosphodiesterase D (Class I)  M-CSA #242

Sphingomyelinase D (SMase D), isolated from Loxosceles laeta, catalyses the hydrolysis of sphingomyelin to ceramide 1-phosphate (C1P) and choline, and the hydrolysis of lysophosphatidyl choline to lysophosphatidic acid (LPA) and choline. This enzyme belongs to class I of the SMase D enzymes. SMase D is a component of Loxosceles spider venom and and is the principle toxin causing dermonecrosis, acute renal failure, platelet aggregation and systemic intravascular haemolysis. SMase D activity is not found anywhere else in the animal kingdom but some pathogenic bacteria, such as Corynebacterium pseudotuberculosis, produce a similar enzyme as an exotoxin. This enzyme belongs to the arthropod phospholipase D family, Class I subfamily.

In addition to hydrolysing sphingomyelin, the enzyme can hydrolyse lysophosphatidyl choline to lysophosphatidic acid and choline.

Defined by 11 residues: HIS:B-12GLU:B-32ASP:B-34HIS:B-47GLY:B-48ASP:B-52ASP:B-91LYS:B-93TRP:B-230ASP:B-233ASN:B-252
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Explore in 3DM-CSA Motif Definition
Up to 10 residues are supported for Structure Motif searching, this motif has 11 residues.
EC: 3.1.4.41 (PDB Primary Data)
EC: 4.6.1 (UniProt)