6XGC

CryoEM structure of influenza hemagglutinin A/Michigan/45/2015 in complex with cyno antibody 1C4

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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	SCOP2B Superfamily	Influenza hemagglutinin domain-like	8102603	3001342	SCOP2B (2022-06-29)
I [auth E]	SCOP2B Superfamily	Influenza hemagglutinin domain-like	8102603	3001342	SCOP2B (2022-06-29)
E [auth C]	SCOP2 Family	Influenza hemagglutinin headpiece	8102602	4002506	SCOP2 (2022-06-29)
E [auth C]	SCOP2 Superfamily	Influenza hemagglutinin domain-like	8102603	3001342	SCOP2 (2022-06-29)
F [auth D]	SCOP2B Superfamily	Influenza hemagglutinin (stalk)	8102611	3001616	SCOP2B (2022-06-29)
J [auth F]	SCOP2 Family	Influenza hemagglutinin (stalk)	8102610	4003840	SCOP2 (2022-06-29)
J [auth F]	SCOP2 Superfamily	Influenza hemagglutinin (stalk)	8102611	3001616	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Influenza hemagglutinin (stalk)	8102611	3001616	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	PF00509	e6xgcA1	A: beta sandwiches	X: jelly-roll	H: Viral protein domain (From Topology)	T: Viral protein domain	F: PF00509	ECOD (1.6)
I [auth E]	PF00509	e6xgcE1	A: beta sandwiches	X: jelly-roll	H: Viral protein domain (From Topology)	T: Viral protein domain	F: PF00509	ECOD (1.6)
E [auth C]	PF00509	e6xgcC1	A: beta sandwiches	X: jelly-roll	H: Viral protein domain (From Topology)	T: Viral protein domain	F: PF00509	ECOD (1.6)
F [auth D]	PF00509	e6xgcD1	A: alpha bundles	X: Hemagglutinin HA2 chain (From Topology)	H: Hemagglutinin HA2 chain (From Topology)	T: Hemagglutinin HA2 chain	F: PF00509	ECOD (1.6)
J [auth F]	PF00509	e6xgcF1	A: alpha bundles	X: Hemagglutinin HA2 chain (From Topology)	H: Hemagglutinin HA2 chain (From Topology)	T: Hemagglutinin HA2 chain	F: PF00509	ECOD (1.6)
B	PF00509	e6xgcB1	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 [auth M]	PF07686	e6xgcM1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
G [auth H]	PF07686	e6xgcH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
K [auth I]	PF07686	e6xgcI1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
D [auth N]	PF07686	e6xgcN1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
L [auth J]	PF07686	e6xgcJ1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
H [auth L]	PF07686	e6xgcL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C [auth M], G [auth H], K [auth I]	Heavy Chain	IGHV3	-	hemagglutinin ha2 chain \| hemagglutinin ha1 chain	SAbDab (2024-05-10)
D [auth N], H [auth L], L [auth J]	Light Chain	IGLV1	Lambda	hemagglutinin ha2 chain \| hemagglutinin ha1 chain	SAbDab (2024-05-10)

Protein Family Annotation Pfam Database Homepage

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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, E [auth C], I [auth E]	Hemagglutinin HA1 chain	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
B, F [auth D], J [auth F]	Hemagglutinin HA2 chain	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
C [auth M], G [auth H], K [auth I]	1C4 Fab heavy chain	-	-	-
D [auth N], H [auth L], L [auth J]	1C4 Fab light chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

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