1V0Y

Phospholipase D from Streptomyces sp. strain PMF soaked with the substrate dibutyrylphosphatidylcholine.

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Structure Motif: Primary M-CSA Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1v0ya1	Alpha and beta proteins (a+b)	Phospholipase D/nuclease	Phospholipase D/nuclease	Phospholipase D	Phospholipase D	(Streptomyces sp. PMF ) [TaxId: 172564 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Phospholipase D/nuclease-like	8041075	3000664	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Phospholipase D/nuclease-like	8041076	3000664	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF13091	e1v0yA2	A: a+b three layers	X: Phospholipase D/nuclease (From Topology)	H: Phospholipase D/nuclease (From Topology)	T: Phospholipase D/nuclease	F: PF13091	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.870.10	Alpha Beta	2-Layer Sandwich	Endonuclease	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF13091	PLD-like domain (PLDc_2)	PLD-like domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	PHOSPHOLIPASE D	transferase activity phosphatidyltransferase activity catalytic activity phosphotransferase activity, for other substituted phosphate groups transferase activity, transferring phosphorus-containing groups phosphoric ester hydrolase activity N-acylphosphatidylethanolamine-specific phospholipase D activity hydrolase activity, acting on ester bonds phosphoric diester hydrolase activity hydrolase activity phospholipase activity lipase activity phospholipase D activity	phosphatidylglycerol metabolic process cellular biosynthetic process glycerophospholipid metabolic process lipid biosynthetic process phospholipid metabolic process organic substance metabolic process phosphate-containing compound metabolic process organic substance biosynthetic process cardiolipin biosynthetic process phosphorus metabolic process glycerophospholipid biosynthetic process cellular metabolic process primary metabolic process cardiolipin metabolic process phosphatidylglycerol metabolic process cellular biosynthetic process glycerophospholipid metabolic process lipid biosynthetic process phospholipid metabolic process organic substance metabolic process phosphate-containing compound metabolic process organic substance biosynthetic process cardiolipin biosynthetic process phosphorus metabolic process glycerophospholipid biosynthetic process cellular metabolic process primary metabolic process cardiolipin metabolic process phospholipid biosynthetic process biosynthetic process glycerolipid biosynthetic process organophosphate metabolic process phosphatidylglycerol biosynthetic process organophosphate biosynthetic process cellular lipid metabolic process glycerolipid metabolic process metabolic process cellular process lipid metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR025202	Phospholipase D-like domain	Domain
A	IPR001736	Phospholipase D/Transphosphatidylase	Domain

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

Chains	Enzyme Name	Description	Catalytic Residues
A	phospholipase D M-CSA #634	Phospholipase D catalyses the hydrolysis of phospholipids (normally phosphatidyl choline) into phosphatidic acid (PA) and the polar head group (normally choline). The PA generated can be converted into second messengers such as diacylglycerol (DAG) and is also suggested to cause changes in lipid bilayer properties. Phospholipase D will additionally catalyse transphosphatidylation reactions in vitro when an alcohol is present as the nucleophilic donor. It has been shown to be part of a superfamily that includes cardiolipin synthases, phosphatidyl serine synthases, poxvirus envelope proteins and several endonucleases.	Defined by 4 residues: HIS:A-167 [auth A-170]ASP:A-199 [auth A-202]HIS:A-440 [auth A-448]ASP:A-465 [auth A-473] \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 3.1.4.4 (PDB Primary Data) Search M-CSA Motif + EC 3.1.4.4

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.