7UM3 | pdb_00007um3

Crystal structure of a Fab in complex with a peptide derived from the LAG-3 D1 domain loop insertion

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
SAbDab Antibody Annotation
Thera-SAbDab Antibody Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D [auth L]	C1-set_4	e7um3L1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
D [auth L]	V-set	e7um3L2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
B [auth M]	C1-set_4	e7um3M1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
B [auth M]	V-set	e7um3M2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
A [auth I]	V-set_8	e7um3I1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
A [auth I]	C1-set_1	e7um3I2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
C [auth H]	V-set_8	e7um3H1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
C [auth H]	C1-set_1	e7um3H2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
B [auth M]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
A [auth I]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
C [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth M], D [auth L]	Light Chain	IGKV3	Kappa	d1 domain loop peptide from lymphocyte activation gene 3protein	SAbDab (2025-10-10)
A [auth I], C [auth H]	Heavy Chain	IGHV4	-	d1 domain loop peptide from lymphocyte activation gene 3protein	SAbDab (2025-10-10)

Thera-SAbDab Antibody Annotation Thera-SAbDab Database Homepage

Chain	Name	Target	Provenance Source
B [auth M], D [auth L]	Cugrastomig	LAG3/CD223, PDCD1/CD279/PD1	Therapeutic SAbDab (2025-10-10)
A [auth I], C [auth H]	Relatlimab	LAG3/CD223, PDCD1/CD279/PD1	Therapeutic SAbDab (2025-10-10)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth B], F [auth A]	D1 domain loop peptide from Lymphocyte activation gene 3 protein	protein binding binding signaling receptor binding MHC class II protein binding MHC protein binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity antigen binding	lymphocyte mediated immunity biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus leukocyte mediated cytotoxicity response to biotic stimulus immune effector process immune system process defense response to other organism response to stress natural killer cell mediated cytotoxicity lymphocyte mediated immunity biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus leukocyte mediated cytotoxicity response to biotic stimulus immune effector process immune system process defense response to other organism response to stress natural killer cell mediated cytotoxicity innate immune response leukocyte mediated immunity cellular process response to external biotic stimulus natural killer cell mediated immunity cell killing regulation of immune effector process positive regulation of leukocyte mediated immunity positive regulation of response to biotic stimulus regulation of cellular process positive regulation of leukocyte mediated cytotoxicity positive regulation of immune response positive regulation of natural killer cell mediated immunity regulation of immune system process positive regulation of immune system process regulation of biological process regulation of natural killer cell mediated immunity regulation of innate immune response regulation of leukocyte mediated immunity regulation of response to stimulus positive regulation of defense response regulation of immune response positive regulation of natural killer cell mediated cytotoxicity regulation of cell killing positive regulation of cell killing regulation of defense response regulation of response to biotic stimulus regulation of natural killer cell mediated cytotoxicity regulation of response to external stimulus positive regulation of lymphocyte mediated immunity positive regulation of biological process positive regulation of response to stimulus positive regulation of response to external stimulus regulation of response to stress positive regulation of immune effector process positive regulation of cellular process positive regulation of innate immune response regulation of leukocyte mediated cytotoxicity biological regulation regulation of lymphocyte mediated immunity multicellular organismal process T cell activation cell activation lymphocyte activation leukocyte activation cellular response to stimulus cell surface receptor signaling pathway signaling signal transduction cell communication adaptive immune response negative regulation of biological process negative regulation of interleukin-2 production regulation of cytokine production cytokine production negative regulation of cellular process regulation of multicellular organismal process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of interleukin-2 production negative regulation of metabolic process interleukin-2 production negative regulation of cytokine production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process negative regulation of multicellular organismal process regulation of metabolic process plasmacytoid dendritic cell activation regulation of leukocyte differentiation regulation of leukocyte activation regulation of cell activation mononuclear cell differentiation regulation of cell differentiation lymphocyte differentiation regulation of cell development negative regulation of cell adhesion multicellular organism development negative regulation of T cell differentiation cell differentiation anatomical structure development T cell differentiation negative regulation of hemopoiesis developmental process negative regulation of leukocyte differentiation negative regulation of T cell activation negative regulation of leukocyte cell-cell adhesion negative regulation of cell-cell adhesion negative regulation of lymphocyte differentiation regulation of leukocyte cell-cell adhesion negative regulation of leukocyte activation leukocyte differentiation cellular developmental process regulation of developmental process cell development negative regulation of lymphocyte activation leukocyte cell-cell adhesion regulation of T cell differentiation cell adhesion cell-cell adhesion negative regulation of regulatory T cell differentiation negative regulation of cell differentiation regulation of cell-cell adhesion regulation of lymphocyte differentiation regulation of multicellular organismal development hemopoiesis negative regulation of developmental process regulation of cell adhesion regulation of regulatory T cell differentiation regulation of T cell activation negative regulation of cell activation negative regulation of cell development negative regulation of immune system process regulatory T cell differentiation regulation of hemopoiesis regulation of lymphocyte activation	cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane extracellular region
B [auth M], D [auth L]	Fab light chain	-	-	-
A [auth I], C [auth H]	Fab heavy chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth B], F [auth A]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
E [auth B], F [auth A]	IPR015621	Interleukin-1 receptor family	Family
E [auth B], F [auth A]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
E [auth B], F [auth A]	IPR003599	Immunoglobulin domain subtype	Domain
E [auth B], F [auth A]	IPR007110	Immunoglobulin-like domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
E [auth B], F [auth A]	Pharos: P18627	atypical teratoid rhabdoid tumor common variable immunodeficiency lung disease psoriasis cancer cutaneous lupus erythematosus medulloblastoma Unresectable or metastatic melanoma colorectal cancer large cell medulloblastoma osteosarcoma

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 R01GM157729.