5JW4 | pdb_00005jw4

Structure of MEDI8852 Fab Fragment in Complex with H5 HA

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
Thera-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)
L	SCOP2B Superfamily	Influenza hemagglutinin (stalk)	8087930	3001616	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Influenza hemagglutinin (stalk)	8087930	3001616	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Influenza hemagglutinin (stalk)	8087930	3001616	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Influenza hemagglutinin (stalk)	8087930	3001616	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Influenza hemagglutinin (stalk)	8087930	3001616	SCOP2B (2022-06-29)
B	SCOP2 Family	Influenza hemagglutinin (stalk)	8087929	4003840	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Influenza hemagglutinin (stalk)	8087930	3001616	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
R	fn3	e5jw4R1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
Q	fn3	e5jw4Q1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
X	fn3	e5jw4X1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
V	fn3	e5jw4V1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
T	fn3	e5jw4T1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
P	fn3	e5jw4P1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
N	fn3	e5jw4N1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
W	fn3	e5jw4W1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
U	fn3	e5jw4U1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
S	fn3	e5jw4S1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
O	fn3	e5jw4O1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
M	fn3	e5jw4M1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
L	fn3	e5jw4L1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
J	fn3	e5jw4J1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
H	fn3	e5jw4H1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
F	fn3	e5jw4F1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
D	fn3	e5jw4D1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
B	Glyco_hydro_18	e5jw4B1	A: a/b three-layered sandwiches	X: omega toxin-like	H: omega toxin-related	T: omega toxin-related	F: Glyco_hydro_18	ECOD (v294.1)
K	fn3	e5jw4K1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
I	fn3	e5jw4I1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
G	fn3	e5jw4G1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
E	fn3	e5jw4E1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
C	fn3	e5jw4C1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)
A	fn3	e5jw4A1	A: a/b three-layered sandwiches	X: Rossmann-like	H: RIFT-related	T: acid protease	F: fn3	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
R	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
Q	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
X	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
V	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
T	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
P	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
N	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
W	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
U	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
S	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
O	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
M	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
L	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
J	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
H	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
F	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
D	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
B	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
K	2.10.77.10	Mainly Beta	Ribbon	Hemagglutinin	Chain A, domain 2	CATH (4.3.0)
K	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)
I	2.10.77.10	Mainly Beta	Ribbon	Hemagglutinin	Chain A, domain 2	CATH (4.3.0)
I	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)
G	2.10.77.10	Mainly Beta	Ribbon	Hemagglutinin	Chain A, domain 2	CATH (4.3.0)
G	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)
E	2.10.77.10	Mainly Beta	Ribbon	Hemagglutinin	Chain A, domain 2	CATH (4.3.0)
E	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)
C	2.10.77.10	Mainly Beta	Ribbon	Hemagglutinin	Chain A, domain 2	CATH (4.3.0)
C	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)
A	2.10.77.10	Mainly Beta	Ribbon	Hemagglutinin	Chain A, domain 2	CATH (4.3.0)
A	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	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
R	MEDI8852 Fab	L-KAPPA	Homo sapiens (human)	IGKV1-3901, IGKV1D-3901, IGKJ101, IGKC01, IGKC*05	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202611-0)
Q	MEDI8852 Fab	VH-CH1	Homo sapiens (human)	IGHV6-101, IGHV6-102, IGHJ301, IGHJ302, IGHG101, IGHG102, IGHG104, IGHG105	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202611-0)
N, P, T, V, X	MEDI8852 Fab	L-KAPPA	Homo sapiens (human)	IGKV1-3901, IGKV1D-3901, IGKJ101, IGKC01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202611-0)
M, O, S, U, W	MEDI8852 Fab	VH-CH1	Homo sapiens (human)	IGHV6-101, IGHV6-102, IGHJ301, IGHJ302, IGHG101, IGHG102, IGHG104, IGHG105	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202611-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
R	Light Chain	IGKV1	Kappa	hemagglutinin \| hemagglutinin	SAbDab (2026-03-27)
Q	Heavy Chain	IGHV6	-	hemagglutinin \| hemagglutinin	SAbDab (2026-03-27)
N, P, T, V, X	Light Chain	IGKV1	Kappa	hemagglutinin \| hemagglutinin	SAbDab (2026-03-27)
M, O, S, U, W	Heavy Chain	IGHV6	-	hemagglutinin \| hemagglutinin	SAbDab (2026-03-27)

Thera-SAbDab Antibody Annotation Thera-SAbDab Database Homepage

Chain	Name	Target	Provenance Source
Q	Sonavibart	Influenza A HA	Therapeutic SAbDab (2026-03-27)
N, P, T, V, X	Sonavibart	Influenza A HA	Therapeutic SAbDab (2026-03-27)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
R	MEDI8852 light chain	-	-	-
Q	MEDI8852 heavy chain	-	-	-
N, P, T, V, X	MEDI8852 light chain	-	-	-
M, O, S, U, W	MEDI8852 heavy chain	-	-	-
B, D, F, H, J B, D, F, H, J, L	Hemagglutinin	host cell surface binding binding host cell surface receptor binding	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell import into cell receptor-mediated endocytosis of virus by host cell biological process involved in interspecies interaction between organisms transport viral life cycle establishment of localization vesicle-mediated transport biological process involved in interaction with host biological process involved in symbiotic interaction localization symbiont entry into host cell viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell import into cell receptor-mediated endocytosis of virus by host cell biological process involved in interspecies interaction between organisms transport viral life cycle establishment of localization vesicle-mediated transport biological process involved in interaction with host biological process involved in symbiotic interaction localization symbiont entry into host cell clathrin-dependent endocytosis symbiont entry into host cellular process clathrin-dependent endocytosis of virus by host cell receptor-mediated endocytosis endocytosis endocytosis involved in viral entry into host cell membrane organization cellular component organization membrane fusion fusion of virus membrane with host plasma membrane cellular component organization or biogenesis virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host	virion component viral membrane viral envelope host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part virion membrane
A, C, E, G, I A, C, E, G, I, K	Hemagglutinin	host cell surface binding binding host cell surface receptor binding	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell import into cell receptor-mediated endocytosis of virus by host cell biological process involved in interspecies interaction between organisms transport viral life cycle establishment of localization vesicle-mediated transport biological process involved in interaction with host biological process involved in symbiotic interaction localization symbiont entry into host cell viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell import into cell receptor-mediated endocytosis of virus by host cell biological process involved in interspecies interaction between organisms transport viral life cycle establishment of localization vesicle-mediated transport biological process involved in interaction with host biological process involved in symbiotic interaction localization symbiont entry into host cell clathrin-dependent endocytosis symbiont entry into host cellular process clathrin-dependent endocytosis of virus by host cell receptor-mediated endocytosis endocytosis endocytosis involved in viral entry into host cell membrane organization cellular component organization membrane fusion fusion of virus membrane with host plasma membrane cellular component organization or biogenesis virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host	virion component viral membrane viral envelope host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part virion membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D, F, H, J B, D, F, H, J, L	IPR001364	Haemagglutinin, influenzavirus A/B	Family
B, D, F, H, J B, D, F, H, J, L	IPR008980	Viral capsid/haemagglutinin protein	Homologous Superfamily
B, D, F, H, J B, D, F, H, J, L	IPR000149	Haemagglutinin, influenzavirus A	Family
B, D, F, H, J B, D, F, H, J, L	IPR013828	Haemagglutinin, HA1 chain, alpha/beta domain superfamily	Homologous Superfamily
A, C, E, G, I A, C, E, G, I, K	IPR001364	Haemagglutinin, influenzavirus A/B	Family
A, C, E, G, I A, C, E, G, I, K	IPR008980	Viral capsid/haemagglutinin protein	Homologous Superfamily
A, C, E, G, I A, C, E, G, I, K	IPR000149	Haemagglutinin, influenzavirus A	Family
A, C, E, G, I A, C, E, G, I, K	IPR013828	Haemagglutinin, HA1 chain, alpha/beta domain superfamily	Homologous Superfamily