8AG1

Crystal structure of a novel OX40 antibody

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
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E [auth A]	SCOP2B Superfamily	TNF receptor-like	8042266	3000971	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	TNF receptor-like	8042265	3000971	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	TNF receptor-like	8042268	3000971	SCOP2B (2022-06-29)
F [auth a]	SCOP2B Superfamily	TNF receptor-like	8042265	3000971	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 L]	PF07654	e8ag1L1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
A [auth L]	PF07686	e8ag1L2	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 l]	PF07654	e8ag1l2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
D [auth l]	PF07686	e8ag1l1	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 H]	PF07654	e8ag1H2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
B [auth H]	PF07686	e8ag1H1	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]	PF07654	e8ag1h2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
C [auth h]	PF07686	e8ag1h1	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 A]	F_UNCLASSIFIED	e8ag1A1	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: TNF receptor-like	F: F_UNCLASSIFIED	ECOD (1.6)
F [auth a]	F_UNCLASSIFIED	e8ag1a2	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: TNF receptor-like	F: F_UNCLASSIFIED	ECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
A [auth L], D [auth l]	Light Chain	IGKV3	Kappa	tumor necrosis factor receptor superfamily member 4	SAbDab (2024-05-10)
B [auth H], C [auth h]	Heavy Chain	IGHV6	-	tumor necrosis factor receptor superfamily member 4	SAbDab (2024-05-10)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth A], F [auth a]	PF00020	TNFR/NGFR cysteine-rich region (TNFR_c6)	TNFR/NGFR cysteine-rich region	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth L], D [auth l]	Novel OX40 antibody light chain	-	-	-
B [auth H], C [auth h]	Novel OX40 antibody heavy chain	-	-	-
E [auth A], F [auth a]	Tumor necrosis factor receptor superfamily member 4	protein binding binding virus receptor activity exogenous protein binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity tumor necrosis factor receptor activity death receptor activity	regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process negative regulation of metabolic process primary metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process organic substance metabolic process negative regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process biological regulation regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process negative regulation of biosynthetic process cellular process multicellular organismal process cell population proliferation cell activation lymphocyte activation leukocyte proliferation leukocyte activation immune system process mononuclear cell proliferation T cell activation lymphocyte proliferation T cell proliferation negative regulation of DNA-binding transcription factor activity negative regulation of molecular function regulation of molecular function regulation of DNA-binding transcription factor activity response to stimulus immune response regulation of immune effector process immunoglobulin production positive regulation of biological process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of immune effector process regulation of immune system process positive regulation of macromolecule metabolic process positive regulation of immune system process positive regulation of cellular process positive regulation of immunoglobulin production production of molecular mediator of immune response immune effector process regulation of immunoglobulin production positive regulation of gene expression positive regulation of production of molecular mediator of immune response regulation of production of molecular mediator of immune response positive regulation of cellular biosynthetic process defense response response to stress inflammatory response positive regulation of cell population proliferation positive regulation of B cell proliferation regulation of leukocyte activation regulation of cell activation positive regulation of lymphocyte activation positive regulation of cell activation regulation of B cell proliferation regulation of B cell activation positive regulation of leukocyte activation positive regulation of mononuclear cell proliferation regulation of multicellular organismal process regulation of lymphocyte proliferation regulation of leukocyte proliferation B cell activation positive regulation of lymphocyte proliferation B cell proliferation positive regulation of B cell activation regulation of cell population proliferation positive regulation of leukocyte proliferation regulation of mononuclear cell proliferation positive regulation of multicellular organismal process regulation of lymphocyte activation	cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth A], F [auth a]	IPR020445	Tumour necrosis factor receptor 4	Family
E [auth A], F [auth a]	IPR001368	TNFR/NGFR cysteine-rich region	Domain
E [auth A], F [auth a]	IPR034022	Tumour necrosis factor receptor 4, N-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
E [auth A], F [auth a]	Pharos: P43489	combined immunodeficiency due to OX40 deficiency autoimmune disease inflammatory bowel disease ulcerative colitis cancer interstitial cystitis psoriasis

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.