8ZD5 | pdb_00008zd5

Crystal structure of E40K variant of Cu/Zn-superoxide dismutase from dog (Canis familiaris) in the holo form complexed with 22E1 Fv-clasp

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B [auth F]	Abhydrolase_3	e8zd5F01	A: a/b three-layered sandwiches	X: ATP-grasp_6	H: ATP-grasp_6	T: ATP-grasp_6	F: Abhydrolase_3	ECOD (v294.1)
A [auth H]	Abhydrolase_3	e8zd5H01	A: a/b three-layered sandwiches	X: ATP-grasp_6	H: ATP-grasp_6	T: ATP-grasp_6	F: Abhydrolase_3	ECOD (v294.1)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth F], I [auth C], J [auth L], L [auth I]	Light Chain	IGKV14	Kappa	superoxide dismutase [cu-zn]	SAbDab (2026-03-27)
A [auth H], C [auth E], H [auth B], K	Heavy Chain	IGHV14	-	superoxide dismutase [cu-zn]	SAbDab (2026-03-27)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
D [auth A], E [auth D], F [auth G], G [auth J]	PF00080	Copper/zinc superoxide dismutase (SODC) (Sod_Cu)	Copper/zinc superoxide dismutase (SODC)	superoxide dismutases (SODs) catalyse the conversion of superoxide radicals to hydrogen peroxide and molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the human SOD ...	superoxide dismutases (SODs) catalyse the conversion of superoxide radicals to hydrogen peroxide and molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the human SOD1 gene cause familial amyotrophic lateral sclerosis (Lou Gehrig's disease). Structure is an eight-stranded beta sandwich, similar to the immunoglobulin fold.	Domain
B [auth F], I [auth C], J [auth L], L [auth I]	PF07686	Immunoglobulin V-set domain (V-set)	Immunoglobulin V-set domain	This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.	Domain
A [auth H], C [auth E], H [auth B], K	PF07686	Immunoglobulin V-set domain (V-set)	Immunoglobulin V-set domain	This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D [auth A], E [auth D], F [auth G], G [auth J]	Superoxide dismutase [Cu-Zn]	cation binding transition metal ion binding copper ion binding ion binding binding metal ion binding small molecule binding superoxide dismutase activity oxidoreductase activity, acting on superoxide radicals as acceptor oxidoreductase activity antioxidant activity catalytic activity	reactive oxygen species metabolic process metabolic process cellular process cellular response to stimulus response to stimulus cellular response to oxidative stress detoxification cellular response to chemical stress response to superoxide cellular oxidant detoxification cellular response to oxygen radical cellular response to reactive oxygen species cellular response to stress response to stress reactive oxygen species metabolic process metabolic process cellular process cellular response to stimulus response to stimulus cellular response to oxidative stress detoxification cellular response to chemical stress response to superoxide cellular oxidant detoxification cellular response to oxygen radical cellular response to reactive oxygen species cellular response to stress response to stress cellular detoxification response to oxygen-containing compound cellular response to oxygen-containing compound response to reactive oxygen species response to toxic substance removal of superoxide radicals superoxide metabolic process response to oxidative stress cellular response to chemical stimulus response to chemical cellular response to superoxide cellular response to toxic substance response to oxygen radical	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle mitochondrion organelle intracellular membrane-bounded organelle nucleus peroxisome microbody
B [auth F], I [auth C], J [auth L], L [auth I]	22E1VL-SARAH	-	response to stimulus immune response immune system process adaptive immune response	cell periphery cellular anatomical structure plasma membrane membrane protein-containing complex immunoglobulin complex extracellular region
A [auth H], C [auth E], H [auth B], K	22E1VH-SARAH	binding antigen binding	adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity response to stimulus immune response immune system process B cell mediated immunity leukocyte mediated immunity immunoglobulin mediated immune response adaptive immune response immune effector process	protein-containing complex immunoglobulin complex cellular anatomical structure extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D [auth A], E [auth D], F [auth G], G [auth J]	IPR024134	Superoxide dismutase (Cu/Zn) / superoxide dismutase copper chaperone	Family
D [auth A], E [auth D], F [auth G], G [auth J]	IPR036423	Superoxide dismutase-like, copper/zinc binding domain superfamily	Homologous Superfamily
D [auth A], E [auth D], F [auth G], G [auth J]	IPR018152	Superoxide dismutase, copper/zinc, binding site	Binding Site
D [auth A], E [auth D], F [auth G], G [auth J]	IPR001424	Superoxide dismutase, copper/zinc binding domain	Domain
B [auth F], I [auth C], J [auth L], L [auth I]	IPR050150	Immunoglobulin Variable Light Chain	Family
B [auth F], I [auth C], J [auth L], L [auth I]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
B [auth F], I [auth C], J [auth L], L [auth I]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
B [auth F], I [auth C], J [auth L], L [auth I]	IPR013106	Immunoglobulin V-set domain	Domain
B [auth F], I [auth C], J [auth L], L [auth I]	IPR003599	Immunoglobulin domain subtype	Domain
B [auth F], I [auth C], J [auth L], L [auth I]	IPR007110	Immunoglobulin-like domain	Domain
A [auth H], C [auth E], H [auth B], K	IPR050199	Immunoglobulin Heavy Variable	Family
A [auth H], C [auth E], H [auth B], K	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A [auth H], C [auth E], H [auth B], K	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A [auth H], C [auth E], H [auth B], K	IPR013106	Immunoglobulin V-set domain	Domain
A [auth H], C [auth E], H [auth B], K	IPR007110	Immunoglobulin-like 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.