Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4X97

Crystal structure of Lysosomal Phospholipase A2 in complex with methyl arachidonyl fluorophosphonate (MAFP)

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0004622	molecular_function	lysophospholipase activity
A	0004623	molecular_function	phospholipase A2 activity
A	0005543	molecular_function	phospholipid binding
A	0005576	cellular_component	extracellular region
A	0005615	cellular_component	extracellular space
A	0005654	cellular_component	nucleoplasm
A	0005764	cellular_component	lysosome
A	0006629	biological_process	lipid metabolic process
A	0006631	biological_process	fatty acid metabolic process
A	0006644	biological_process	phospholipid metabolic process
A	0006650	biological_process	glycerophospholipid metabolic process
A	0006651	biological_process	diacylglycerol biosynthetic process
A	0006658	biological_process	phosphatidylserine metabolic process
A	0006672	biological_process	ceramide metabolic process
A	0008270	molecular_function	zinc ion binding
A	0008374	molecular_function	O-acyltransferase activity
A	0008970	molecular_function	phospholipase A1 activity
A	0009062	biological_process	fatty acid catabolic process
A	0016020	cellular_component	membrane
A	0016042	biological_process	lipid catabolic process
A	0016411	molecular_function	acylglycerol O-acyltransferase activity
A	0016746	molecular_function	acyltransferase activity
A	0016787	molecular_function	hydrolase activity
A	0034638	biological_process	phosphatidylcholine catabolic process
A	0043231	cellular_component	intracellular membrane-bounded organelle
A	0046338	biological_process	phosphatidylethanolamine catabolic process
A	0046470	biological_process	phosphatidylcholine metabolic process
A	0046471	biological_process	phosphatidylglycerol metabolic process
A	0046872	molecular_function	metal ion binding
A	0047499	molecular_function	calcium-independent phospholipase A2 activity
A	0052739	molecular_function	phosphatidylserine 1-acylhydrolase activity
A	0052740	molecular_function	1-acyl-2-lysophosphatidylserine acylhydrolase activity
A	0070062	cellular_component	extracellular exosome
A	0102545	molecular_function	phosphatidyl phospholipase B activity
B	0004622	molecular_function	lysophospholipase activity
B	0004623	molecular_function	phospholipase A2 activity
B	0005543	molecular_function	phospholipid binding
B	0005576	cellular_component	extracellular region
B	0005615	cellular_component	extracellular space
B	0005654	cellular_component	nucleoplasm
B	0005764	cellular_component	lysosome
B	0006629	biological_process	lipid metabolic process
B	0006631	biological_process	fatty acid metabolic process
B	0006644	biological_process	phospholipid metabolic process
B	0006650	biological_process	glycerophospholipid metabolic process
B	0006651	biological_process	diacylglycerol biosynthetic process
B	0006658	biological_process	phosphatidylserine metabolic process
B	0006672	biological_process	ceramide metabolic process
B	0008270	molecular_function	zinc ion binding
B	0008374	molecular_function	O-acyltransferase activity
B	0008970	molecular_function	phospholipase A1 activity
B	0009062	biological_process	fatty acid catabolic process
B	0016020	cellular_component	membrane
B	0016042	biological_process	lipid catabolic process
B	0016411	molecular_function	acylglycerol O-acyltransferase activity
B	0016746	molecular_function	acyltransferase activity
B	0016787	molecular_function	hydrolase activity
B	0034638	biological_process	phosphatidylcholine catabolic process
B	0043231	cellular_component	intracellular membrane-bounded organelle
B	0046338	biological_process	phosphatidylethanolamine catabolic process
B	0046470	biological_process	phosphatidylcholine metabolic process
B	0046471	biological_process	phosphatidylglycerol metabolic process
B	0046872	molecular_function	metal ion binding
B	0047499	molecular_function	calcium-independent phospholipase A2 activity
B	0052739	molecular_function	phosphatidylserine 1-acylhydrolase activity
B	0052740	molecular_function	1-acyl-2-lysophosphatidylserine acylhydrolase activity
B	0070062	cellular_component	extracellular exosome
B	0102545	molecular_function	phosphatidyl phospholipase B activity
C	0004622	molecular_function	lysophospholipase activity
C	0004623	molecular_function	phospholipase A2 activity
C	0005543	molecular_function	phospholipid binding
C	0005576	cellular_component	extracellular region
C	0005615	cellular_component	extracellular space
C	0005654	cellular_component	nucleoplasm
C	0005764	cellular_component	lysosome
C	0006629	biological_process	lipid metabolic process
C	0006631	biological_process	fatty acid metabolic process
C	0006644	biological_process	phospholipid metabolic process
C	0006650	biological_process	glycerophospholipid metabolic process
C	0006651	biological_process	diacylglycerol biosynthetic process
C	0006658	biological_process	phosphatidylserine metabolic process
C	0006672	biological_process	ceramide metabolic process
C	0008270	molecular_function	zinc ion binding
C	0008374	molecular_function	O-acyltransferase activity
C	0008970	molecular_function	phospholipase A1 activity
C	0009062	biological_process	fatty acid catabolic process
C	0016020	cellular_component	membrane
C	0016042	biological_process	lipid catabolic process
C	0016411	molecular_function	acylglycerol O-acyltransferase activity
C	0016746	molecular_function	acyltransferase activity
C	0016787	molecular_function	hydrolase activity
C	0034638	biological_process	phosphatidylcholine catabolic process
C	0043231	cellular_component	intracellular membrane-bounded organelle
C	0046338	biological_process	phosphatidylethanolamine catabolic process
C	0046470	biological_process	phosphatidylcholine metabolic process
C	0046471	biological_process	phosphatidylglycerol metabolic process
C	0046872	molecular_function	metal ion binding
C	0047499	molecular_function	calcium-independent phospholipase A2 activity
C	0052739	molecular_function	phosphatidylserine 1-acylhydrolase activity
C	0052740	molecular_function	1-acyl-2-lysophosphatidylserine acylhydrolase activity
C	0070062	cellular_component	extracellular exosome
C	0102545	molecular_function	phosphatidyl phospholipase B activity
D	0004622	molecular_function	lysophospholipase activity
D	0004623	molecular_function	phospholipase A2 activity
D	0005543	molecular_function	phospholipid binding
D	0005576	cellular_component	extracellular region
D	0005615	cellular_component	extracellular space
D	0005654	cellular_component	nucleoplasm
D	0005764	cellular_component	lysosome
D	0006629	biological_process	lipid metabolic process
D	0006631	biological_process	fatty acid metabolic process
D	0006644	biological_process	phospholipid metabolic process
D	0006650	biological_process	glycerophospholipid metabolic process
D	0006651	biological_process	diacylglycerol biosynthetic process
D	0006658	biological_process	phosphatidylserine metabolic process
D	0006672	biological_process	ceramide metabolic process
D	0008270	molecular_function	zinc ion binding
D	0008374	molecular_function	O-acyltransferase activity
D	0008970	molecular_function	phospholipase A1 activity
D	0009062	biological_process	fatty acid catabolic process
D	0016020	cellular_component	membrane
D	0016042	biological_process	lipid catabolic process
D	0016411	molecular_function	acylglycerol O-acyltransferase activity
D	0016746	molecular_function	acyltransferase activity
D	0016787	molecular_function	hydrolase activity
D	0034638	biological_process	phosphatidylcholine catabolic process
D	0043231	cellular_component	intracellular membrane-bounded organelle
D	0046338	biological_process	phosphatidylethanolamine catabolic process
D	0046470	biological_process	phosphatidylcholine metabolic process
D	0046471	biological_process	phosphatidylglycerol metabolic process
D	0046872	molecular_function	metal ion binding
D	0047499	molecular_function	calcium-independent phospholipase A2 activity
D	0052739	molecular_function	phosphatidylserine 1-acylhydrolase activity
D	0052740	molecular_function	1-acyl-2-lysophosphatidylserine acylhydrolase activity
D	0070062	cellular_component	extracellular exosome
D	0102545	molecular_function	phosphatidyl phospholipase B activity

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	4
Details	ACT_SITE: Acyl-ester intermediate => ECO:0000255, ECO:0000269\|PubMed:25727495, ECO:0007744\|PDB:4X97

Chain	Residue	Details
A	SER165
B	SER165
C	SER165
D	SER165

site_id	SWS_FT_FI2
Number of Residues	8
Details	ACT_SITE: Charge relay system => ECO:0000305\|PubMed:25727495

Chain	Residue	Details
A	ASP327
A	HIS359
B	ASP327
B	HIS359
C	ASP327
C	HIS359
D	ASP327
D	HIS359

site_id	SWS_FT_FI3
Number of Residues	4
Details	BINDING: BINDING => ECO:0000305\|PubMed:25727495, ECO:0007744\|PDB:4X97

Chain	Residue	Details
A	ASP13
B	ASP13
C	ASP13
D	ASP13

site_id	SWS_FT_FI4
Number of Residues	16
Details	BINDING: BINDING => ECO:0000269\|PubMed:30830753

Chain	Residue	Details
A	SER165
C	ASP307
C	CYS322
C	HIS359
D	SER165
D	ASP307
D	CYS322
D	HIS359
A	ASP307
A	CYS322
A	HIS359
B	SER165
B	ASP307
B	CYS322
B	HIS359
C	SER165

site_id	SWS_FT_FI5
Number of Residues	4
Details	BINDING: BINDING => ECO:0000305\|PubMed:25727495, ECO:0007744\|PDB:4X95

Chain	Residue	Details
A	MET166
B	MET166
C	MET166
D	MET166

site_id	SWS_FT_FI6
Number of Residues	16
Details	CARBOHYD: N-linked (GlcNAc...) asparagine => ECO:0000255, ECO:0000269\|PubMed:25727495, ECO:0007744\|PDB:4X90, ECO:0007744\|PDB:4X91, ECO:0007744\|PDB:4X92, ECO:0007744\|PDB:4X93, ECO:0007744\|PDB:4X94, ECO:0007744\|PDB:4X95, ECO:0007744\|PDB:4X97

Chain	Residue	Details
A	ASN66
C	ASN240
C	ASN256
C	ASN365
D	ASN66
D	ASN240
D	ASN256
D	ASN365
A	ASN240
A	ASN256
A	ASN365
B	ASN66
B	ASN240
B	ASN256
B	ASN365
C	ASN66

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)