5UGY

Influenza hemagglutinin in complex with a neutralizing antibody

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
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: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d5ugya1	All beta proteins	Viral protein domain	Viral protein domain	Influenza hemagglutinin headpiece	Hemagglutinin	(Influenza A virus (A/Solomon Islands/3/2006(H1N1)) ) [TaxId: 464623 ],	SCOPe (2.08)
A	d5ugya2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Influenza A virus (A/Solomon Islands/3/2006(H1N1)) ) [TaxId: 464623 ],	SCOPe (2.08)
C	d5ugyc1	All beta proteins	Viral protein domain	Viral protein domain	Influenza hemagglutinin headpiece	Hemagglutinin	(Influenza A virus (A/Solomon Islands/3/2006(H1N1)) ) [TaxId: 464623 ],	SCOPe (2.08)
C	d5ugyc2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Influenza A virus (A/Solomon Islands/3/2006(H1N1)) ) [TaxId: 464623 ],	SCOPe (2.08)
E	d5ugye1	All beta proteins	Viral protein domain	Viral protein domain	Influenza hemagglutinin headpiece	Hemagglutinin	(Influenza A virus (A/Solomon Islands/3/2006(H1N1)) ) [TaxId: 464623 ],	SCOPe (2.08)
E	d5ugye2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Influenza A virus (A/Solomon Islands/3/2006(H1N1)) ) [TaxId: 464623 ],	SCOPe (2.08)
B	d5ugyb_	Coiled coil proteins	Stalk segment of viral fusion proteins	Influenza hemagglutinin (stalk)	Influenza hemagglutinin (stalk)	Influenza hemagglutinin (stalk)	(Influenza A virus (A/Solomon Islands/3/2006(H1N1)) ) [TaxId: 464623 ],	SCOPe (2.08)
D	d5ugyd_	Coiled coil proteins	Stalk segment of viral fusion proteins	Influenza hemagglutinin (stalk)	Influenza hemagglutinin (stalk)	Influenza hemagglutinin (stalk)	(Influenza A virus (A/Solomon Islands/3/2006(H1N1)) ) [TaxId: 464623 ],	SCOPe (2.08)
F	d5ugyf_	Coiled coil proteins	Stalk segment of viral fusion proteins	Influenza hemagglutinin (stalk)	Influenza hemagglutinin (stalk)	Influenza hemagglutinin (stalk)	(Influenza A virus (A/Solomon Islands/3/2006(H1N1)) ) [TaxId: 464623 ],	SCOPe (2.08)
G [auth H]	d5ugyh_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ], Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
H [auth I]	d5ugyi_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ], Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
I [auth J]	d5ugyj_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ], Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
J [auth L]	d5ugyl1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ], Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
K [auth M]	d5ugym1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ], Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
L [auth N]	d5ugyn1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ], Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Influenza hemagglutinin domain-like	8097168	3001342	SCOP2B (2022-06-29)
C	SCOP2 Family	Influenza hemagglutinin headpiece	8097167	4002506	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Influenza hemagglutinin domain-like	8097168	3001342	SCOP2 (2022-06-29)
E	SCOP2B Superfamily	Influenza hemagglutinin domain-like	8097168	3001342	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	Hemagglutinin_1st	e5ugyA1	A: beta sandwiches	X: jelly-roll	H: Viral protein domain (From Topology)	T: Viral protein domain	F: Hemagglutinin_1st	ECOD (1.6)
C	Hemagglutinin_1st	e5ugyC1	A: beta sandwiches	X: jelly-roll	H: Viral protein domain (From Topology)	T: Viral protein domain	F: Hemagglutinin_1st	ECOD (1.6)
E	Hemagglutinin_1st	e5ugyE1	A: beta sandwiches	X: jelly-roll	H: Viral protein domain (From Topology)	T: Viral protein domain	F: Hemagglutinin_1st	ECOD (1.6)
B	Hemagglutinin_2nd	e5ugyB1	A: alpha bundles	X: Hemagglutinin HA2 chain (From Topology)	H: Hemagglutinin HA2 chain (From Topology)	T: Hemagglutinin HA2 chain	F: Hemagglutinin_2nd	ECOD (1.6)
D	Hemagglutinin_2nd	e5ugyD1	A: alpha bundles	X: Hemagglutinin HA2 chain (From Topology)	H: Hemagglutinin HA2 chain (From Topology)	T: Hemagglutinin HA2 chain	F: Hemagglutinin_2nd	ECOD (1.6)
F	Hemagglutinin_2nd	e5ugyF1	A: alpha bundles	X: Hemagglutinin HA2 chain (From Topology)	H: Hemagglutinin HA2 chain (From Topology)	T: Hemagglutinin HA2 chain	F: Hemagglutinin_2nd	ECOD (1.6)
G [auth H]	V-set_8	e5ugyH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
G [auth H]	C1-set_1	e5ugyH2	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)
H [auth I]	V-set_8	e5ugyI2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
H [auth I]	C1-set_1	e5ugyI1	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 J]	V-set_8	e5ugyJ2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
I [auth J]	C1-set_1	e5ugyJ1	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)
J [auth L]	C1-set	e5ugyL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set	ECOD (1.6)
J [auth L]	V-set_3	e5ugyL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_3	ECOD (1.6)
K [auth M]	C1-set	e5ugyM1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set	ECOD (1.6)
K [auth M]	V-set_3	e5ugyM2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_3	ECOD (1.6)
L [auth N]	C1-set	e5ugyN1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set	ECOD (1.6)
L [auth N]	V-set_3	e5ugyN2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_3	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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)
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)
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)
B	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)
F	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
G [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
H [auth I]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
I [auth J]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
J [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
K [auth M]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
L [auth N]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	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 H], H [auth I], I [auth J]	Fab CH65, neutralizing	VH-CH1	Homo sapiens (human)	IGHV1-204, IGHJ601, IGHJ602, IGHG103	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_LAMBDA	IMGT (202450-0)
J [auth L], K [auth M], L [auth N]	Fab CH65, neutralizing	L-LAMBDA	Homo sapiens (human)	IGLV3-2102, IGLJ201, IGLJ301, IGLC201, IGLC202, IGLC304	V-DOMAIN V-LAMBDA, C-DOMAIN C-LAMBDA	IG	FAB-GAMMA-1_LAMBDA	IMGT (202450-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
G [auth H], H [auth I], I [auth J]	Heavy Chain	IGHV1	-	hemagglutinin ha1	SAbDab (2024-12-20)
J [auth L], K [auth M], L [auth N]	Light Chain	IGLV3	Lambda	hemagglutinin ha1	SAbDab (2024-12-20)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C, E	PF00509	Haemagglutinin (Hemagglutinin)	Haemagglutinin	-	Family
B, D, F	PF00509	Haemagglutinin (Hemagglutinin)	Haemagglutinin	-	Family
G [auth H], H [auth I], I [auth J]	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
G [auth H], H [auth I], I [auth J]	PF07654	Immunoglobulin C1-set domain (C1-set)	Immunoglobulin C1-set domain	-	Domain
J [auth L], K [auth M], L [auth N]	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
J [auth L], K [auth M], L [auth N]	PF07654	Immunoglobulin C1-set domain (C1-set)	Immunoglobulin C1-set domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C, E	Hemagglutinin HA1	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 transport of virus 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 cell periphery apical part of cell membrane plasma membrane plasma membrane region apical plasma membrane
B, D, F	Hemagglutinin HA2	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 membrane organization cellular component organization membrane fusion fusion of virus membrane with host plasma membrane cellular process cellular component organization or biogenesis virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral life cycle adhesion of symbiont to host viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell membrane organization cellular component organization membrane fusion fusion of virus membrane with host plasma membrane cellular process cellular component organization or biogenesis virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction non-lytic viral release viral budding virion assembly exit from host cell viral budding from plasma membrane viral release from host cell import into cell receptor-mediated endocytosis of virus by host cell transport establishment of localization vesicle-mediated transport localization symbiont entry into host cell clathrin-dependent endocytosis symbiont entry into host clathrin-dependent endocytosis of virus by host cell receptor-mediated endocytosis endocytosis endocytosis involved in viral entry into host cell transport of virus	virion component virion membrane cell periphery cellular anatomical structure apical part of cell membrane plasma membrane plasma membrane region apical plasma membrane viral membrane viral envelope host cell plasma membrane host cellular component host cell part virion component virion membrane cell periphery cellular anatomical structure apical part of cell membrane plasma membrane plasma membrane region apical plasma membrane viral membrane viral envelope host cell plasma membrane host cellular component host cell part host cell membrane
G [auth H], H [auth I], I [auth J]	CH65 heavy chain	-	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
J [auth L], K [auth M], L [auth N]	CH65 light chain	-	-	cellular anatomical structure extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C, E	IPR001364	Haemagglutinin, influenzavirus A/B	Family
A, C, E	IPR008980	Viral capsid/haemagglutinin protein	Homologous Superfamily
A, C, E	IPR000149	Haemagglutinin, influenzavirus A	Family
A, C, E	IPR013828	Haemagglutinin, HA1 chain, alpha/beta domain superfamily	Homologous Superfamily
B, D, F	IPR001364	Haemagglutinin, influenzavirus A/B	Family
B, D, F	IPR008980	Viral capsid/haemagglutinin protein	Homologous Superfamily
B, D, F	IPR000149	Haemagglutinin, influenzavirus A	Family
B, D, F	IPR013828	Haemagglutinin, HA1 chain, alpha/beta domain superfamily	Homologous Superfamily
G [auth H], H [auth I], I [auth J]	IPR003597	Immunoglobulin C1-set	Domain
G [auth H], H [auth I], I [auth J]	IPR050199	Immunoglobulin Heavy Variable	Family
G [auth H], H [auth I], I [auth J]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
G [auth H], H [auth I], I [auth J]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
G [auth H], H [auth I], I [auth J]	IPR013106	Immunoglobulin V-set domain	Domain
G [auth H], H [auth I], I [auth J]	IPR003599	Immunoglobulin domain subtype	Domain
G [auth H], H [auth I], I [auth J]	IPR007110	Immunoglobulin-like domain	Domain
G [auth H], H [auth I], I [auth J]	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site
J [auth L], K [auth M], L [auth N]	IPR003597	Immunoglobulin C1-set	Domain
J [auth L], K [auth M], L [auth N]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
J [auth L], K [auth M], L [auth N]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
J [auth L], K [auth M], L [auth N]	IPR013106	Immunoglobulin V-set domain	Domain
J [auth L], K [auth M], L [auth N]	IPR003599	Immunoglobulin domain subtype	Domain
J [auth L], K [auth M], L [auth N]	IPR007110	Immunoglobulin-like domain	Domain
J [auth L], K [auth M], L [auth N]	IPR050160	Major Histocompatibility Complex/Immunoglobulin	Family
J [auth L], K [auth M], L [auth N]	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site