4WA1

The crystal structure of hemagglutinin from a H3N8 influenza virus isolated from New England harbor seals

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
B	d4wa1b1	All beta proteins	Viral protein domain	Viral protein domain	Influenza hemagglutinin headpiece	Hemagglutinin	(Influenza A virus (A/harbor seal/Massachusetts/1/2011(H3N8)) ) [TaxId: 1136533 ],	SCOPe (2.08)
B	d4wa1b2	Coiled coil proteins	Stalk segment of viral fusion proteins	Influenza hemagglutinin (stalk)	automated matches	automated matches	(Influenza A virus (A/harbor seal/Massachusetts/1/2011(H3N8)) ) [TaxId: 1136533 ],	SCOPe (2.08)
C	d4wa1c1	All beta proteins	Viral protein domain	Viral protein domain	Influenza hemagglutinin headpiece	Hemagglutinin	(Influenza A virus (A/harbor seal/Massachusetts/1/2011(H3N8)) ) [TaxId: 1136533 ],	SCOPe (2.08)
C	d4wa1c2	Coiled coil proteins	Stalk segment of viral fusion proteins	Influenza hemagglutinin (stalk)	automated matches	automated matches	(Influenza A virus (A/harbor seal/Massachusetts/1/2011(H3N8)) ) [TaxId: 1136533 ],	SCOPe (2.08)
D	d4wa1d1	All beta proteins	Viral protein domain	Viral protein domain	Influenza hemagglutinin headpiece	Hemagglutinin	(Influenza A virus (A/harbor seal/Massachusetts/1/2011(H3N8)) ) [TaxId: 1136533 ],	SCOPe (2.08)
D	d4wa1d2	Coiled coil proteins	Stalk segment of viral fusion proteins	Influenza hemagglutinin (stalk)	automated matches	automated matches	(Influenza A virus (A/harbor seal/Massachusetts/1/2011(H3N8)) ) [TaxId: 1136533 ],	SCOPe (2.08)
E	d4wa1e1	All beta proteins	Viral protein domain	Viral protein domain	Influenza hemagglutinin headpiece	Hemagglutinin	(Influenza A virus (A/harbor seal/Massachusetts/1/2011(H3N8)) ) [TaxId: 1136533 ],	SCOPe (2.08)
E	d4wa1e2	Coiled coil proteins	Stalk segment of viral fusion proteins	Influenza hemagglutinin (stalk)	automated matches	automated matches	(Influenza A virus (A/harbor seal/Massachusetts/1/2011(H3N8)) ) [TaxId: 1136533 ],	SCOPe (2.08)
F	d4wa1f1	All beta proteins	Viral protein domain	Viral protein domain	Influenza hemagglutinin headpiece	Hemagglutinin	(Influenza A virus (A/harbor seal/Massachusetts/1/2011(H3N8)) ) [TaxId: 1136533 ],	SCOPe (2.08)
F	d4wa1f2	Coiled coil proteins	Stalk segment of viral fusion proteins	Influenza hemagglutinin (stalk)	automated matches	automated matches	(Influenza A virus (A/harbor seal/Massachusetts/1/2011(H3N8)) ) [TaxId: 1136533 ],	SCOPe (2.08)
A	d4wa1a1	All beta proteins	Viral protein domain	Viral protein domain	Influenza hemagglutinin headpiece	Hemagglutinin	(Influenza A virus (A/harbor seal/Massachusetts/1/2011(H3N8)) ) [TaxId: 1136533 ],	SCOPe (2.08)
A	d4wa1a2	Coiled coil proteins	Stalk segment of viral fusion proteins	Influenza hemagglutinin (stalk)	automated matches	automated matches	(Influenza A virus (A/harbor seal/Massachusetts/1/2011(H3N8)) ) [TaxId: 1136533 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	PF00509	e4wa1B2	A: beta sandwiches	X: jelly-roll	H: Viral protein domain (From Topology)	T: Viral protein domain	F: PF00509	ECOD (1.6)
B	PF00509	e4wa1B1	A: alpha bundles	X: Hemagglutinin HA2 chain (From Topology)	H: Hemagglutinin HA2 chain (From Topology)	T: Hemagglutinin HA2 chain	F: PF00509	ECOD (1.6)
C	PF00509	e4wa1C1	A: beta sandwiches	X: jelly-roll	H: Viral protein domain (From Topology)	T: Viral protein domain	F: PF00509	ECOD (1.6)
C	PF00509	e4wa1C2	A: alpha bundles	X: Hemagglutinin HA2 chain (From Topology)	H: Hemagglutinin HA2 chain (From Topology)	T: Hemagglutinin HA2 chain	F: PF00509	ECOD (1.6)
D	PF00509	e4wa1D1	A: beta sandwiches	X: jelly-roll	H: Viral protein domain (From Topology)	T: Viral protein domain	F: PF00509	ECOD (1.6)
D	PF00509	e4wa1D2	A: alpha bundles	X: Hemagglutinin HA2 chain (From Topology)	H: Hemagglutinin HA2 chain (From Topology)	T: Hemagglutinin HA2 chain	F: PF00509	ECOD (1.6)
E	PF00509	e4wa1E2	A: beta sandwiches	X: jelly-roll	H: Viral protein domain (From Topology)	T: Viral protein domain	F: PF00509	ECOD (1.6)
E	PF00509	e4wa1E1	A: alpha bundles	X: Hemagglutinin HA2 chain (From Topology)	H: Hemagglutinin HA2 chain (From Topology)	T: Hemagglutinin HA2 chain	F: PF00509	ECOD (1.6)
F	PF00509	e4wa1F2	A: beta sandwiches	X: jelly-roll	H: Viral protein domain (From Topology)	T: Viral protein domain	F: PF00509	ECOD (1.6)
F	PF00509	e4wa1F1	A: alpha bundles	X: Hemagglutinin HA2 chain (From Topology)	H: Hemagglutinin HA2 chain (From Topology)	T: Hemagglutinin HA2 chain	F: PF00509	ECOD (1.6)
A	PF00509	e4wa1A2	A: beta sandwiches	X: jelly-roll	H: Viral protein domain (From Topology)	T: Viral protein domain	F: PF00509	ECOD (1.6)
A	PF00509	e4wa1A1	A: alpha bundles	X: Hemagglutinin HA2 chain (From Topology)	H: Hemagglutinin HA2 chain (From Topology)	T: Hemagglutinin HA2 chain	F: PF00509	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
B	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)
C	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
C	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)
D	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
D	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)
E	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
E	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)
F	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
F	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)
A	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
A	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF00509	Haemagglutinin (Hemagglutinin)	Haemagglutinin	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	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 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 apical part of cell membrane plasma membrane plasma membrane region cellular anatomical entity apical plasma membrane viral membrane viral envelope host cell plasma membrane host cellular component host cell part virion component virion membrane cell periphery apical part of cell membrane plasma membrane plasma membrane region cellular anatomical entity apical plasma membrane viral membrane viral envelope host cell plasma membrane host cellular component host cell part host cell membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR001364	Haemagglutinin, influenzavirus A/B	Family
A, B, C, D, E A, B, C, D, E, F	IPR008980	Viral capsid/haemagglutinin protein	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR000149	Haemagglutinin, influenzavirus A	Family
A, B, C, D, E A, B, C, D, E, F	IPR013828	Haemagglutinin, HA1 chain, alpha/beta domain 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 R01GM133198.