6B3M | pdb_00006b3m

The crystal structure of a broadly-reactive human anti-hemagglutinin stalk antibody (70-1F02) in complex with H5 hemagglutinin

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
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)
Q [auth T]	SCOP2B Superfamily	Influenza hemagglutinin (stalk)	8087910	3001616	SCOP2B (2022-06-29)
O [auth R]	SCOP2B Superfamily	Influenza hemagglutinin (stalk)	8087910	3001616	SCOP2B (2022-06-29)
J [auth L]	SCOP2B Superfamily	Influenza hemagglutinin (stalk)	8087910	3001616	SCOP2B (2022-06-29)
G [auth H]	SCOP2B Superfamily	Influenza hemagglutinin (stalk)	8087910	3001616	SCOP2B (2022-06-29)
E [auth F]	SCOP2 Family	Influenza hemagglutinin (stalk)	8087909	4003840	SCOP2 (2022-06-29)
E [auth F]	SCOP2 Superfamily	Influenza hemagglutinin (stalk)	8087910	3001616	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Influenza hemagglutinin (stalk)	8087910	3001616	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
X [auth N]	e6b3mN1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
W	e6b3mW1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
V [auth D]	e6b3mD1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
U [auth J]	e6b3mJ1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
T [auth U]	e6b3mU1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: NNMT_PNMT_TEMT	F:	ECOD (20:10:01)
M [auth P]	e6b3mP1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
S [auth Y]	e6b3mY1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
R [auth V]	e6b3mV1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
L [auth O]	e6b3mO1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
K [auth M]	e6b3mM1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
H [auth I]	e6b3mI1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
C	e6b3mC1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: NNMT_PNMT_TEMT	F:	ECOD (20:10:01)
Q [auth T]	e6b3mT1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
O [auth R]	e6b3mR1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
J [auth L]	e6b3mL1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
G [auth H]	e6b3mH1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
E [auth F]	e6b3mF1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: NNMT_PNMT_TEMT	F:	ECOD (20:10:01)
B	e6b3mB1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
P [auth S]	e6b3mS1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
N [auth Q]	e6b3mQ1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
I [auth K]	e6b3mK1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
F [auth G]	e6b3mG1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
D [auth E]	e6b3mE1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: Cadherin	F:	ECOD (20:10:01)
A	e6b3mA1	A: L-aspartase middle domain-like	X: gp11/gp12 receptor-binding domain	H: gp11/gp12 receptor-binding domain	T: NNMT_PNMT_TEMT	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
X [auth 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)
V [auth D]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
U [auth J]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
T [auth U]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
M [auth P]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
S [auth Y]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
R [auth V]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
L [auth O]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
K [auth M]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
H [auth I]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
C	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
Q [auth T]	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
O [auth R]	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
J [auth L]	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
G [auth H]	3.90.20.10	Alpha Beta	Alpha-Beta Complex	Hemagglutinin Ectodomain	Chain B	CATH (4.3.0)
E [auth F]	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)
P [auth S]	2.10.77.10	Mainly Beta	Ribbon	Hemagglutinin	Chain A, domain 2	CATH (4.3.0)
P [auth S]	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)
N [auth Q]	2.10.77.10	Mainly Beta	Ribbon	Hemagglutinin	Chain A, domain 2	CATH (4.3.0)
N [auth Q]	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)
I [auth K]	2.10.77.10	Mainly Beta	Ribbon	Hemagglutinin	Chain A, domain 2	CATH (4.3.0)
I [auth K]	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)
F [auth G]	2.10.77.10	Mainly Beta	Ribbon	Hemagglutinin	Chain A, domain 2	CATH (4.3.0)
F [auth G]	3.90.209.20	Alpha Beta	Alpha-Beta Complex	Hemagglutinin (Ha1 Chain)	Chain: A	CATH (4.3.0)
D [auth E]	2.10.77.10	Mainly Beta	Ribbon	Hemagglutinin	Chain A, domain 2	CATH (4.3.0)
D [auth E]	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
M [auth P], T [auth U], U [auth J], V [auth D], W, M [auth P], T [auth U], U [auth J], V [auth D], W, X [auth N]	Fab 70-1F02	L-KAPPA	Homo sapiens (human)	IGKV3-2001, IGKJ101, IGKC*01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202609-0)
C, H [auth I], K [auth M], L [auth O], R [auth V], C, H [auth I], K [auth M], L [auth O], R [auth V], S [auth Y]	Fab 70-1F02	VH-CH1	Homo sapiens (human)	IGHV1-6901, IGHV1-6912, IGHV1-6913, IGHV1-69D01, IGHV1-6915, IGHJ301, IGHJ302, IGHG101, IGHG102, IGHG104, IGHG1*05	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202609-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
M [auth P], T [auth U], U [auth J], V [auth D], W, M [auth P], T [auth U], U [auth J], V [auth D], W, X [auth N]	Light Chain	IGKV3	Kappa	hemagglutinin ha2 \| hemagglutinin ha1	SAbDab (2026-03-13)
C, H [auth I], K [auth M], L [auth O], R [auth V], C, H [auth I], K [auth M], L [auth O], R [auth V], S [auth Y]	Heavy Chain	IGHV1	-	hemagglutinin ha2 \| hemagglutinin ha1	SAbDab (2026-03-13)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
M [auth P], T [auth U], U [auth J], V [auth D], W, M [auth P], T [auth U], U [auth J], V [auth D], W, X [auth N]	70-1F02 Fab Light Chain	-	-	-
C, H [auth I], K [auth M], L [auth O], R [auth V], C, H [auth I], K [auth M], L [auth O], R [auth V], S [auth Y]	70-1F02 Fab Heavy Chain	-	-	-
B, E [auth F], G [auth H], J [auth L], O [auth R], B, E [auth F], G [auth H], J [auth L], O [auth R], Q [auth T]	Hemagglutinin HA2	host cell surface binding binding host cell surface receptor binding	membrane organization cellular component organization membrane fusion fusion of virus membrane with host plasma membrane viral process cellular process cellular component organization or biogenesis membrane fusion involved in viral entry into host cell biological process involved in interspecies interaction between organisms symbiont entry into host cell symbiont entry into host viral life cycle endocytosis involved in viral entry into host cell biological process involved in interaction with host membrane organization cellular component organization membrane fusion fusion of virus membrane with host plasma membrane viral process cellular process cellular component organization or biogenesis membrane fusion involved in viral entry into host cell biological process involved in interspecies interaction between organisms symbiont entry into host cell symbiont entry into host viral life cycle endocytosis involved in viral entry into host cell biological process involved in interaction with host biological process involved in symbiotic interaction	virion component viral membrane viral envelope
A, D [auth E], F [auth G], I [auth K], N [auth Q], A, D [auth E], F [auth G], I [auth K], N [auth Q], P [auth S]	Hemagglutinin HA1	identical protein binding protein binding binding host cell surface 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 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	virion component virion membrane viral membrane viral envelope host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, E [auth F], G [auth H], J [auth L], O [auth R], B, E [auth F], G [auth H], J [auth L], O [auth R], Q [auth T]	IPR001364	Haemagglutinin, influenzavirus A/B	Family
B, E [auth F], G [auth H], J [auth L], O [auth R], B, E [auth F], G [auth H], J [auth L], O [auth R], Q [auth T]	IPR000386	Haemagglutinin, influenzavirus B	Family
A, D [auth E], F [auth G], I [auth K], N [auth Q], A, D [auth E], F [auth G], I [auth K], N [auth Q], P [auth S]	IPR001364	Haemagglutinin, influenzavirus A/B	Family
A, D [auth E], F [auth G], I [auth K], N [auth Q], A, D [auth E], F [auth G], I [auth K], N [auth Q], P [auth S]	IPR008980	Viral capsid/haemagglutinin protein	Homologous Superfamily
A, D [auth E], F [auth G], I [auth K], N [auth Q], A, D [auth E], F [auth G], I [auth K], N [auth Q], P [auth S]	IPR000149	Haemagglutinin, influenzavirus A	Family
A, D [auth E], F [auth G], I [auth K], N [auth Q], A, D [auth E], F [auth G], I [auth K], N [auth Q], P [auth S]	IPR013828	Haemagglutinin, HA1 chain, alpha/beta domain superfamily	Homologous Superfamily