8DMH

Lymphocytic choriomeningitis virus glycoprotein in complex with neutralizing antibody M28

External Resource: Annotation

Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C [auth F]	PF07686	e8dmhF1	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	e8dmhH1	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 J]	PF07686	e8dmhJ1	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)
A	PF00798	e8dmhA1	A: a+b complex topology	X: Envelope glycoprotein GP1 (From Topology)	H: Envelope glycoprotein GP1 (From Topology)	T: Envelope glycoprotein GP1	F: PF00798	ECOD (1.6)
E [auth B]	PF00798	e8dmhB1	A: a+b complex topology	X: Envelope glycoprotein GP1 (From Topology)	H: Envelope glycoprotein GP1 (From Topology)	T: Envelope glycoprotein GP1	F: PF00798	ECOD (1.6)
I [auth C]	PF00798	e8dmhC1	A: a+b complex topology	X: Envelope glycoprotein GP1 (From Topology)	H: Envelope glycoprotein GP1 (From Topology)	T: Envelope glycoprotein GP1	F: PF00798	ECOD (1.6)
B [auth E]	PF07686	e8dmhE1	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)
F [auth G]	PF07686	e8dmhG1	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)
J [auth I]	PF07686	e8dmhI1	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 a]	PF00798	e8dmha1	A: a+b complex topology	X: Arenavirus glycoprotein GP2 (From Topology)	H: Arenavirus glycoprotein GP2 (From Topology)	T: Arenavirus glycoprotein GP2	F: PF00798	ECOD (1.6)
H [auth b]	PF00798	e8dmhb1	A: a+b complex topology	X: Arenavirus glycoprotein GP2 (From Topology)	H: Arenavirus glycoprotein GP2 (From Topology)	T: Arenavirus glycoprotein GP2	F: PF00798	ECOD (1.6)
L [auth c]	PF00798	e8dmhc1	A: a+b complex topology	X: Arenavirus glycoprotein GP2 (From Topology)	H: Arenavirus glycoprotein GP2 (From Topology)	T: Arenavirus glycoprotein GP2	F: PF00798	ECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C [auth F], G [auth H], K [auth J]	Heavy Chain	IGHV3	-	unknown \| glycoprotein g2,cobalamin adenosyltransferase-like domain-containing protein trimerization tag	SAbDab (2024-08-09)
B [auth E], F [auth G], J [auth I]	Light Chain	IGKV3	Kappa	unknown \| glycoprotein g2,cobalamin adenosyltransferase-like domain-containing protein trimerization tag	SAbDab (2024-08-09)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth F], G [auth H], K [auth J]	18.5C-M28 Fab Heavy Chain	-	-	-
A, E [auth B], I [auth C]	Glycoprotein G1	cation binding ion binding binding metal ion binding small molecule binding	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell 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 viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell 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 symbiont entry into host cellular process endocytosis involved in viral entry into host cell endocytosis receptor-mediated endocytosis transport of virus	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum host cell membrane cellular anatomical entity host cell cytoplasm part host intracellular organelle host cell cytoplasm host cell part host cell endomembrane system host intracellular region host cell endoplasmic reticulum membrane virion component host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum host cell membrane cellular anatomical entity host cell cytoplasm part host intracellular organelle host cell cytoplasm host cell part host cell endomembrane system host intracellular region host cell endoplasmic reticulum membrane virion component viral membrane viral envelope membrane host cell plasma membrane virion membrane host cell Golgi membrane host cell Golgi apparatus
B [auth E], F [auth G], J [auth I]	18.5C-M28 Fab Light Chain	-	-	-
D [auth a], H [auth b], L [auth c]	Glycoprotein G2,Cobalamin adenosyltransferase-like domain-containing protein trimerization tag	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding corrinoid adenosyltransferase activity transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups catalytic activity cation binding metal ion binding	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell 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 viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell 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 symbiont entry into host cellular process endocytosis involved in viral entry into host cell endocytosis receptor-mediated endocytosis transport of virus	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum host cell membrane cellular anatomical entity host cell cytoplasm part host intracellular organelle host cell cytoplasm host cell part host cell endomembrane system host intracellular region host cell endoplasmic reticulum membrane virion component host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum host cell membrane cellular anatomical entity host cell cytoplasm part host intracellular organelle host cell cytoplasm host cell part host cell endomembrane system host intracellular region host cell endoplasmic reticulum membrane virion component viral membrane viral envelope membrane host cell plasma membrane virion membrane host cell Golgi membrane host cell Golgi apparatus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, E [auth B], I [auth C]	IPR043015	Arenavirus glycoprotein, zinc binding domain	Homologous Superfamily
A, E [auth B], I [auth C]	IPR001535	Arenavirus glycoprotein	Family
D [auth a], H [auth b], L [auth c]	IPR029499	Corrinoid adenosyltransferase, PduO-type	Family
D [auth a], H [auth b], L [auth c]	IPR036451	Cobalamin adenosyltransferase-like superfamily	Homologous Superfamily
D [auth a], H [auth b], L [auth c]	IPR016030	Cobalamin adenosyltransferase-like	Domain
D [auth a], H [auth b], L [auth c]	IPR043015	Arenavirus glycoprotein, zinc binding domain	Homologous Superfamily
D [auth a], H [auth b], L [auth c]	IPR001535	Arenavirus glycoprotein	Family

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.