6Q23

Crystal structure of human 1G01 Fab in complex with influenza virus neuraminidase from A/California/04/2009 (H1N1)

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
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)
A [auth C]	SCOP2B Superfamily	Sialidases	8071676	3001607	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Sialidases	8071676	3001607	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	Sialidases	8071676	3001607	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Sialidases	8071676	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)
A [auth C]	Neur	e6q23C1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 6-bladed	F: Neur	ECOD (1.6)
B	Neur	e6q23B1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 6-bladed	F: Neur	ECOD (1.6)
C [auth A]	Neur	e6q23A1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 6-bladed	F: Neur	ECOD (1.6)
D	Neur	e6q23D1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 6-bladed	F: Neur	ECOD (1.6)
G [auth E]	C1-set_1	e6q23E2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
G [auth E]	V-set_12	e6q23E1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_12	ECOD (1.6)
I [auth G]	C1-set_1	e6q23G2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
I [auth G]	V-set_12	e6q23G1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_12	ECOD (1.6)
K [auth J]	C1-set_1	e6q23J1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
K [auth J]	V-set_12	e6q23J2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_12	ECOD (1.6)
E [auth H]	C1-set_1	e6q23H1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
E [auth H]	V-set_12	e6q23H2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_12	ECOD (1.6)
F [auth L]	C1-set_4	e6q23L2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
F [auth L]	V-set	e6q23L1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
H [auth F]	C1-set_4	e6q23F1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
H [auth F]	V-set	e6q23F2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
J [auth I]	C1-set_4	e6q23I1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
J [auth I]	V-set	e6q23I2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
L [auth K]	C1-set_4	e6q23K2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
L [auth K]	V-set	e6q23K1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

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

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
E [auth H], G [auth E], I [auth G], K [auth J]	Fab 1G04, broadly protective	VH-CH1	Homo sapiens (human)	IGHV3-2004, IGHJ201, IGHG103, IGHG108, IGHG1*06	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202434-0)
F [auth L], H [auth F], J [auth I], L [auth K]	Fab 1G04, broadly protective	L-KAPPA	Homo sapiens (human)	IGKV1-901, IGKJ301, IGKC*01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202434-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
E [auth H], G [auth E], I [auth G], K [auth J]	Heavy Chain	IGHV3	-	neuraminidase	SAbDab (2024-08-30)
F [auth L], H [auth F], J [auth I], L [auth K]	Light Chain	IGKV1	Kappa	neuraminidase	SAbDab (2024-08-30)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth C], B, C [auth A], D	PF00064	Neuraminidase (Neur)	Neuraminidase	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth C], B, C [auth A], D	Neuraminidase	hydrolase activity, acting on glycosyl bonds exo-alpha-(2->6)-sialidase activity alpha-sialidase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity exo-alpha-sialidase activity catalytic activity exo-alpha-(2->8)-sialidase activity exo-alpha-(2->3)-sialidase activity cation binding ion binding binding metal ion binding small molecule binding hydrolase activity, acting on glycosyl bonds exo-alpha-(2->6)-sialidase activity alpha-sialidase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity exo-alpha-sialidase activity catalytic activity exo-alpha-(2->8)-sialidase activity exo-alpha-(2->3)-sialidase activity cation binding ion binding binding metal ion binding small molecule binding identical protein binding protein binding	carbohydrate metabolic process primary metabolic process metabolic process biological process involved in interspecies interaction between organisms non-lytic viral release viral budding viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction virion assembly exit from host cell viral process viral budding from plasma membrane viral release from host cell	membrane cellular anatomical entity virion component virion membrane host cell plasma membrane host cellular component host cell part host cell membrane
E [auth H], G [auth E], I [auth G], K [auth J]	1G01 Fab IgG1 heavy chain	-	-	-
F [auth L], H [auth F], J [auth I], L [auth K]	1G01 Fab kappa light chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth C], B, C [auth A], D	IPR033654	Sialidase, Influenza viruses A/B	Domain
A [auth C], B, C [auth A], D	IPR036278	Sialidase superfamily	Homologous Superfamily
A [auth C], B, C [auth A], D	IPR001860	Glycoside hydrolase, family 34	Family