8PKC | pdb_00008pkc

Structure of Api m1 in complex with the AM1-4 nanobody

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Phospholipase A2, PLA2	8038938	3001690	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Phospholipase A2, PLA2	8038938	3001690	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)
C	Homeodomain	e8pkcC01	A: alpha bundles	X: Helical bundle insertion in helicase domains	H: Helical bundle in Hef helicase	T: Helical bundle in Hef helicase	F: Homeodomain	ECOD (develop294)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C, D	Heavy Chain	IGHV1	-	phospholipase a2	SAbDab (2026-03-20)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF05826	Phospholipase A2 (Phospholip_A2_2)	Phospholipase A2	This family consists of several phospholipase A2 like proteins mostly from insects [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D	AM1-4 nanobody	-	-	-
A, B	Phospholipase A2	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding phospholipase activity A2-type glycerophospholipase activity hydrolase activity, acting on ester bonds glycerophospholipase activity carboxylic ester hydrolase activity hydrolase activity catalytic activity lipase activity	organic anion transport carboxylic acid transport secretion transport arachidonate transport lipid localization lipid transport establishment of localization organic acid transport localization arachidonate secretion monocarboxylic acid transport fatty acid transport icosanoid transport macromolecule localization organic anion transport carboxylic acid transport secretion transport arachidonate transport lipid localization lipid transport establishment of localization organic acid transport localization arachidonate secretion monocarboxylic acid transport fatty acid transport icosanoid transport macromolecule localization icosanoid secretion long-chain fatty acid transport lipid catabolic process catabolic process metabolic process cellular process primary metabolic process lipid metabolic process phospholipid metabolic process organophosphate metabolic process phosphate-containing compound metabolic process phosphorus metabolic process	cellular anatomical structure extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR036444	Phospholipase A2 domain superfamily	Homologous Superfamily
A, B	IPR033113	Phospholipase A2, histidine active site	Active Site
A, B	IPR016090	Phospholipase A2-like, central domain	Domain

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.