3ETB

Crystal structure of the engineered neutralizing antibody M18 complexed with anthrax protective antigen domain 4

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT 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)
E [auth J]	SCOP2B Superfamily	FIP-like	8054214	3002056	SCOP2B (2022-06-29)
F [auth K]	SCOP2B Superfamily	FIP-like	8054214	3002056	SCOP2B (2022-06-29)
G [auth L]	SCOP2B Superfamily	FIP-like	8054214	3002056	SCOP2B (2022-06-29)
H [auth M]	SCOP2B Superfamily	FIP-like	8054214	3002056	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 [auth F]	PF07686	e3etbF2	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)
B [auth G]	PF07686	e3etbG2	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)
C [auth H]	PF07686	e3etbH2	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 I]	PF07686	e3etbI2	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)
E [auth J]	PF20835	e3etbJ1	A: beta sandwiches	X: Ig-like domain in anthrax protective antigen (From Topology)	H: Ig-like domain in anthrax protective antigen (From Topology)	T: Ig-like domain in anthrax protective antigen	F: PF20835	ECOD (1.6)
F [auth K]	PF20835	e3etbK1	A: beta sandwiches	X: Ig-like domain in anthrax protective antigen (From Topology)	H: Ig-like domain in anthrax protective antigen (From Topology)	T: Ig-like domain in anthrax protective antigen	F: PF20835	ECOD (1.6)
G [auth L]	PF20835	e3etbL1	A: beta sandwiches	X: Ig-like domain in anthrax protective antigen (From Topology)	H: Ig-like domain in anthrax protective antigen (From Topology)	T: Ig-like domain in anthrax protective antigen	F: PF20835	ECOD (1.6)
H [auth M]	PF20835	e3etbM1	A: beta sandwiches	X: Ig-like domain in anthrax protective antigen (From Topology)	H: Ig-like domain in anthrax protective antigen (From Topology)	T: Ig-like domain in anthrax protective antigen	F: PF20835	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth F]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B [auth G]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D [auth I]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
E [auth J]	2.60.40.810	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
F [auth K]	2.60.40.810	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
G [auth L]	2.60.40.810	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
H [auth M]	2.60.40.810	Mainly Beta	Sandwich	Immunoglobulin-like		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
A [auth F], B [auth G], C [auth H], D [auth I]	M18, anti-anthrax PA-63, neutralizing	SCFV-KAPPA-HEAVY	Mus musculus (house mouse)	IGKV10-9601, IGKJ101, IGHV1-8201, IGHJ401	V-DOMAIN V-KAPPA, V-DOMAIN VH	IG	SCFV-KAPPA-HEAVY	IMGT (202416-0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth J], F [auth K], G [auth L], H [auth M]	PF20835	Anthrax protective antigen, immunoglobulin-like domain (PA_Ig-like)	Anthrax protective antigen, immunoglobulin-like domain	Anthrax protective antigen (PA) is one of the three proteins forming the anthrax toxin. It is involved in the first step of toxin entry into host cells, enabling lethal factor (LF) and oedema factor (EF) to cross to the cytosol. PA undergoes cleavage ...	Anthrax protective antigen (PA) is one of the three proteins forming the anthrax toxin. It is involved in the first step of toxin entry into host cells, enabling lethal factor (LF) and oedema factor (EF) to cross to the cytosol. PA undergoes cleavage by Furin to generate PA20 and PA63. The latter, which adopts a ring-shaped heptameric assembly, shows four distinct domains. The fourth domain, a carboxy- terminal receptor-binding domain, shows an initial hairpin and helix, followed by a beta-sandwich with an immunoglobulin-like fold (this entry) [1-5].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth F], B [auth G], C [auth H], D [auth I]	Antibody M18 light chain and antibody M18 heavy chain linked with a synthetic (GGGGS)4 linker	-	-	-
E [auth J], F [auth K], G [auth L], H [auth M]	Anthrax Protective Antigen	toxin activity cation binding ion binding binding metal ion binding small molecule binding identical protein binding protein binding	cellular response to stimulus regulation of cellular process response to stimulus signaling negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of biological process regulation of signal transduction intracellular signal transduction negative regulation of cell communication cell communication regulation of intracellular signal transduction intracellular signaling cassette negative regulation of cellular process cellular response to stimulus regulation of cellular process response to stimulus signaling negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of biological process regulation of signal transduction intracellular signal transduction negative regulation of cell communication cell communication regulation of intracellular signal transduction intracellular signaling cassette negative regulation of cellular process signal transduction regulation of biological process regulation of signaling negative regulation of response to stimulus biological regulation regulation of MAPK cascade negative regulation of signal transduction regulation of response to stimulus MAPK cascade regulation of cell communication cellular process negative regulation of MAPK cascade positive regulation of apoptotic process in another organism modulation of apoptotic process in another organism biological process involved in interspecies interaction between organisms positive regulation of biological process regulation of programmed cell death regulation of killing of cells of another organism disruption of cell in another organism modulation of process of another organism positive regulation of cellular process killing of cells of another organism positive regulation of programmed cell death regulation of apoptotic process cell death positive regulation of apoptotic process regulation of cell killing apoptotic process disruption of anatomical structure in another organism programmed cell death cell killing cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis	membrane cellular anatomical entity extracellular region host intracellular membrane-bounded organelle host cellular component host intracellular part host cell membrane host cell cytoplasm part host intracellular organelle host cell endosome membrane host cell cytoplasm host cell part host cell endosome host intracellular region membrane cellular anatomical entity extracellular region host intracellular membrane-bounded organelle host cellular component host intracellular part host cell membrane host cell cytoplasm part host intracellular organelle host cell endosome membrane host cell cytoplasm host cell part host cell endosome host intracellular region host cell plasma membrane host cell cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth J], F [auth K], G [auth L], H [auth M]	IPR035331	Clostridial binary toxin B/anthrax toxin PA, domain 3	Domain
E [auth J], F [auth K], G [auth L], H [auth M]	IPR048853	Anthrax protective antigen, immunoglobulin-like domain	Domain
E [auth J], F [auth K], G [auth L], H [auth M]	IPR011658	PA14 domain	Domain
E [auth J], F [auth K], G [auth L], H [auth M]	IPR027439	Protective antigen, heptamerisation domain	Domain
E [auth J], F [auth K], G [auth L], H [auth M]	IPR035088	Protective antigen, Ca-binding domain	Domain
E [auth J], F [auth K], G [auth L], H [auth M]	IPR037524	PA14/GLEYA domain	Domain
E [auth J], F [auth K], G [auth L], H [auth M]	IPR037149	Protective antigen, heptamerisation domain superfamily	Homologous Superfamily
E [auth J], F [auth K], G [auth L], H [auth M]	IPR003896	Bacterial exotoxin B	Family
E [auth J], F [auth K], G [auth L], H [auth M]	IPR027441	Protective antigen, domain 4	Homologous Superfamily

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.