6M08 | pdb_00006m08

Crystal structure of Lp-PLA2 in complex with a novel covalent inhibitor.

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	PsaA_PsaB	e6m08B1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PsaA_PsaB	ECOD (develop294)
A	PsaA_PsaB	e6m08A1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PsaA_PsaB	ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF03403	Platelet-activating factor acetylhydrolase, isoform II (PAF-AH_p_II)	Platelet-activating factor acetylhydrolase, isoform II	Platelet-activating factor acetylhydrolase (PAF-AH) is a subfamily of phospholipases A2, responsible for inactivation of platelet-activating factor through cleavage of an acetyl group. Three known PAF-AHs are the brain heterotrimeric PAF-AH Ib, whose ...	Platelet-activating factor acetylhydrolase (PAF-AH) is a subfamily of phospholipases A2, responsible for inactivation of platelet-activating factor through cleavage of an acetyl group. Three known PAF-AHs are the brain heterotrimeric PAF-AH Ib, whose catalytic beta and gamma subunits are aligned in Pfam:PF02266, the extracellular, plasma PAF-AH (pPAF-AH), and the intracellular PAF-AH isoform II (PAF-AH II). This family aligns pPAF-AH and PAF-AH II, whose similarity was previously noted.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Platelet-activating factor acetylhydrolase	hydrolase activity, acting on ester bonds 1-alkyl-2-acetylglycerophosphocholine esterase activity carboxylic ester hydrolase activity hydrolase activity catalytic activity binding phospholipid binding lipid binding	plasma lipoprotein particle organization multicellular organismal process regulation of biological process low-density lipoprotein particle remodeling protein-containing complex organization protein-containing complex remodeling protein-lipid complex organization biological regulation plasma lipoprotein particle remodeling regulation of plasma lipoprotein particle levels cellular component organization protein-lipid complex remodeling cellular process cellular component organization or biogenesis plasma lipoprotein particle organization multicellular organismal process regulation of biological process low-density lipoprotein particle remodeling protein-containing complex organization protein-containing complex remodeling protein-lipid complex organization biological regulation plasma lipoprotein particle remodeling regulation of plasma lipoprotein particle levels cellular component organization protein-lipid complex remodeling cellular process cellular component organization or biogenesis lipid catabolic process catabolic process platelet activating factor metabolic process phospholipid catabolic process glycerophospholipid metabolic process glycerolipid catabolic process organophosphate catabolic process primary metabolic process ether catabolic process phospholipid metabolic process glycerol ether catabolic process organophosphate metabolic process phosphate-containing compound metabolic process ether lipid metabolic process glycerophospholipid catabolic process metabolic process glycerolipid metabolic process platelet activating factor catabolic process phosphorus metabolic process lipid metabolic process regulation of defense response response to stimulus regulation of response to external stimulus defense response positive regulation of biological process response to external stimulus regulation of inflammatory response positive regulation of response to stimulus positive regulation of response to external stimulus positive regulation of inflammatory response regulation of response to stimulus regulation of response to stress response to stress positive regulation of defense response inflammatory response phosphatidylcholine catabolic process phosphatidylcholine metabolic process cellular response to stimulus positive regulation of monocyte chemotaxis positive regulation of locomotion regulation of cell motility regulation of cellular process positive regulation of chemotaxis positive regulation of cell migration regulation of monocyte chemotaxis taxis positive regulation of cell motility regulation of cell migration myeloid leukocyte migration positive regulation of mononuclear cell migration cell migration regulation of immune system process cell motility regulation of mononuclear cell migration positive regulation of immune system process locomotion positive regulation of cellular process cell chemotaxis chemotaxis regulation of leukocyte chemotaxis regulation of leukocyte migration positive regulation of leukocyte migration positive regulation of leukocyte chemotaxis regulation of chemotaxis monocyte chemotaxis leukocyte migration cellular response to chemical stimulus immune system process response to chemical regulation of locomotion mononuclear cell migration leukocyte chemotaxis plasma lipoprotein particle oxidation peptide hormone processing regulation of hormone levels signaling receptor ligand precursor processing gene expression macromolecule biosynthetic process hormone metabolic process protein maturation biosynthetic process proteolysis protein processing protein metabolic process macromolecule metabolic process regulation of biological quality lipid modification lipid oxidation	cellular anatomical structure extracellular region protein-containing complex plasma lipoprotein particle high-density lipoprotein particle extracellular space lipoprotein particle protein-lipid complex low-density lipoprotein particle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR029058	Alpha/Beta hydrolase fold	Homologous Superfamily
A, B	IPR016715	Platelet-activating factor acetylhydrolase-like, eukaryote	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q13093	platelet-activating factor acetylhydrolase deficiency asthma IgE responsiveness, atopic Hypersensitivity, Immediate coronary artery disease inborn errors of metabolism lung adenocarcinoma non-small cell lung carcinoma schizophrenia ulcerative colitis atopic eczema chronic obstructive pulmonary disease cutaneous lupus erythematosus interstitial cystitis lung carcinoma platelet-activating factor acetylhydrolase deficiency asthma IgE responsiveness, atopic Hypersensitivity, Immediate coronary artery disease inborn errors of metabolism lung adenocarcinoma non-small cell lung carcinoma schizophrenia ulcerative colitis atopic eczema chronic obstructive pulmonary disease cutaneous lupus erythematosus interstitial cystitis lung carcinoma obesity disorder psoriasis Sjogren syndrome ductal breast carcinoma in situ IgA glomerulonephritis invasive ductal breast carcinoma nasopharyngeal carcinoma pilocytic astrocytoma sarcoidosis tuberculosis atherosclerosis cerebrovascular disorder head and neck cancer inherited susceptibility to asthma

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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.