3OPZ | pdb_00003opz

Crystal structure of trans-sialidase in complex with the Fab fragment of a neutralizing monoclonal IgG antibody

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody 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)
C	SCOP2B Superfamily	Sialidases	8037008	3001607	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8037009	3000120	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8037009	3000120	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Sialidases	8037008	3001607	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8037009	3000120	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Sialidases	8037008	3001607	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)
H [auth M]		e3opzM1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: UCH_N	F:	ECOD (20:10:01)
I [auth N]		e3opzN1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: UCH_N	F:	ECOD (20:10:01)
G [auth L]		e3opzL1	A: OB-fold	X: Bet v1-like	H: Bet v1-like	T: Lipocalin	F:	ECOD (20:10:01)
F [auth J]		e3opzJ1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: UCH_N	F:	ECOD (20:10:01)
E [auth I]		e3opzI1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: UCH_N	F:	ECOD (20:10:01)
D [auth H]		e3opzH1	A: OB-fold	X: Bet v1-like	H: Bet v1-like	T: Lipocalin	F:	ECOD (20:10:01)
C		e3opzC1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: UCH_N	F:	ECOD (20:10:01)
B		e3opzB1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: UCH_N	F:	ECOD (20:10:01)
A		e3opzA1	A: OB-fold	X: Bet v1-like	H: Bet v1-like	T: Lipocalin	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H [auth M]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
I [auth N]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
G [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
F [auth J]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
E [auth I]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C	2.120.10.10	Mainly Beta	6 Propeller	Neuraminidase		CATH (4.3.0)
C	2.60.120.200	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
B	2.120.10.10	Mainly Beta	6 Propeller	Neuraminidase		CATH (4.3.0)
B	2.60.120.200	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
A	2.120.10.10	Mainly Beta	6 Propeller	Neuraminidase		CATH (4.3.0)
A	2.60.120.200	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
G [auth L], H [auth M], I [auth N]	Fab fragment of immunoglobulin G	L-KAPPA	Mus musculus (house mouse)	IGKV4-8001, IGKJ203, IGKJ401, IGKC01, IGKC*02	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-2A_KAPPA	IMGT (202609-0)
D [auth H], E [auth I], F [auth J]	Fab fragment of immunoglobulin G	VH-CH1	Mus musculus (house mouse)	IGHV1-6302, IGHJ201, IGHG2A01, IGHG2A02	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-2A_KAPPA	IMGT (202609-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
G [auth L], H [auth M], I [auth N]	Light Chain	IGKV4	Kappa	trans-sialidase	SAbDab (2026-03-13)
D [auth H], E [auth I], F [auth J]	Heavy Chain	IGHV1	-	trans-sialidase	SAbDab (2026-03-13)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
G [auth L], H [auth M], I [auth N]	light chain of the Fab fragment of immunoglobulin G	-	-	-
D [auth H], E [auth I], F [auth J]	heavy chain of the Fab fragment of immunoglobulin G	-	-	-
A, B, C	Trans-sialidase	hydrolase activity, acting on glycosyl bonds alpha-sialidase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity exo-alpha-sialidase activity catalytic activity	sphingolipid catabolic process ceramide metabolic process ganglioside catabolic process carbohydrate derivative catabolic process glycosphingolipid catabolic process lipid catabolic process catabolic process glycolipid metabolic process glycosphingolipid metabolic process liposaccharide metabolic process carbohydrate derivative metabolic process primary metabolic process sphingolipid metabolic process glycolipid catabolic process ceramide catabolic process sphingolipid catabolic process ceramide metabolic process ganglioside catabolic process carbohydrate derivative catabolic process glycosphingolipid catabolic process lipid catabolic process catabolic process glycolipid metabolic process glycosphingolipid metabolic process liposaccharide metabolic process carbohydrate derivative metabolic process primary metabolic process sphingolipid metabolic process glycolipid catabolic process ceramide catabolic process metabolic process cellular process ganglioside metabolic process lipid metabolic process carbohydrate metabolic process oligosaccharide catabolic process oligosaccharide metabolic process carbohydrate catabolic process	cellular anatomical structure membrane intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
A, B, C	IPR011040	Sialidase	Domain
A, B, C	IPR026856	Sialidase family	Family
A, B, C	IPR055239	Trans-sialidase, C-terminal domain	Domain
A, B, C	IPR008377	Trypanosome sialidase	Family
A, B, C	IPR036278	Sialidase superfamily	Homologous Superfamily

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.