6K7O | pdb_00006k7o

Complex structure of LILRB4 and h128-3 antibody

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C	d6k7oc2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d6k7oc1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E	d6k7oe2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E	d6k7oe1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
G	d6k7og2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
G	d6k7og1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
I [auth L]	d6k7ol2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
I [auth L]	d6k7ol1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d6k7ob_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d6k7od_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F	d6k7of_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
H	d6k7oh_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A		e6k7oA1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F:	ECOD (v294.1)
J [auth P]	JAB	e6k7oP1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: JAB	ECOD (v294.1)
K [auth R]	JAB	e6k7oR1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: JAB	ECOD (v294.1)
L [auth Q]	JAB	e6k7oQ1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: JAB	ECOD (v294.1)
C		e6k7oC1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F:	ECOD (v294.1)
E	JAB	e6k7oE1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: JAB	ECOD (v294.1)
G	JAB	e6k7oG1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: JAB	ECOD (v294.1)
I [auth L]	JAB	e6k7oL1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: JAB	ECOD (v294.1)
B		e6k7oB1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F:	ECOD (v294.1)
D	JAB	e6k7oD1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: JAB	ECOD (v294.1)
F	JAB	e6k7oF1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: JAB	ECOD (v294.1)
H	JAB	e6k7oH1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: JAB	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
J [auth P]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
K [auth R]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
L [auth Q]	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)
E	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
G	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
I [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
D	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
F	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
H	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

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, J [auth P], K [auth R], L [auth Q]	4	LILRB1	Homo sapiens (human)	LILRB1*01	C-LIKE-DOMAIN C-LIKE	RPI	LILRB4	IMGT (202614-0)
C, E, G, I [auth L]	Fab h128-3	L-KAPPA	Homo sapiens (human)	IGKV1-3901, IGKV1D-3901, IGKJ401, IGKJ402, IGKC*01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202614-0)
B, D, F, H	Fab h128-3	VH-CH1	Homo sapiens (human)	IGHV3-2303, IGHJ101, IGHG101, IGHG102, IGHG104, IGHG105, IGHG112, IGHG114, IGHG113, IGHG109, IGHG110, IGHG107, IGHG1*11	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202614-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C, E, G, I [auth L]	Light Chain	IGKV1	Kappa	leukocyte immunoglobulin-like receptor subfamily b member4	SAbDab (2026-04-17)
B, D, F, H	Heavy Chain	IGHV3	-	leukocyte immunoglobulin-like receptor subfamily b member4	SAbDab (2026-04-17)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, J [auth P], K [auth R], L [auth Q]	PF13895	Immunoglobulin domain (Ig_2)	Immunoglobulin domain	This domain contains immunoglobulin-like domains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, J [auth P], K [auth R], L [auth Q]	Leukocyte immunoglobulin-like receptor subfamily B member 4	inhibitory MHC class I receptor activity MHC class I receptor activity molecular transducer activity transmembrane signaling receptor activity signaling receptor activity immune receptor activity protein phosphatase binding phosphatase binding protein binding binding enzyme binding fibronectin binding enzyme regulator activity protein tyrosine kinase inhibitor activity inhibitory MHC class I receptor activity MHC class I receptor activity molecular transducer activity transmembrane signaling receptor activity signaling receptor activity immune receptor activity protein phosphatase binding phosphatase binding protein binding binding enzyme binding fibronectin binding enzyme regulator activity protein tyrosine kinase inhibitor activity transmembrane receptor protein tyrosine kinase inhibitor activity signaling receptor inhibitor activity enzyme inhibitor activity protein kinase regulator activity protein kinase inhibitor activity molecular function inhibitor activity molecular function regulator activity signaling receptor regulator activity kinase inhibitor activity kinase regulator activity apolipoprotein binding	cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation response to cytokine cytokine-mediated signaling pathway cell communication response to peptide response to chemical cellular process cellular response to cytokine stimulus cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation response to cytokine cytokine-mediated signaling pathway cell communication response to peptide response to chemical cellular process cellular response to cytokine stimulus signal transduction multicellular organismal process regulation of tumor necrosis factor production negative regulation of biological process negative regulation of tumor necrosis factor production cytokine production regulation of cytokine production negative regulation of cellular process regulation of multicellular organismal process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of metabolic process tumor necrosis factor superfamily cytokine production negative regulation of cytokine production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process tumor necrosis factor production regulation of gene expression negative regulation of gene expression regulation of tumor necrosis factor superfamily cytokine production biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of tumor necrosis factor superfamily cytokine production metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process negative regulation of multicellular organismal process regulation of metabolic process immune response immune system process adaptive immune response negative regulation of interleukin-2 production regulation of interleukin-2 production interleukin-2 production localization import into cell receptor internalization transport receptor-mediated endocytosis endocytosis establishment of localization vesicle-mediated transport interleukin-6 production regulation of interleukin-6 production negative regulation of interleukin-6 production regulation of signaling negative regulation of signaling negative regulation of response to stimulus negative regulation of intracellular signal transduction regulation of signal transduction negative regulation of signal transduction negative regulation of cell communication intracellular signal transduction regulation of response to stimulus regulation of intracellular signal transduction regulation of cell communication monocyte activation regulation of leukocyte activation cell activation regulation of cell activation negative regulation of monocyte activation myeloid leukocyte activation leukocyte activation negative regulation of cell activation negative regulation of immune system process regulation of immune system process negative regulation of leukocyte activation negative regulation of lymphocyte proliferation negative regulation of T cell proliferation negative regulation of cell adhesion negative regulation of leukocyte proliferation T cell activation lymphocyte proliferation regulation of leukocyte proliferation cell population proliferation negative regulation of T cell activation negative regulation of leukocyte cell-cell adhesion regulation of cell population proliferation mononuclear cell proliferation negative regulation of cell-cell adhesion regulation of leukocyte cell-cell adhesion lymphocyte activation negative regulation of lymphocyte activation leukocyte proliferation leukocyte cell-cell adhesion negative regulation of mononuclear cell proliferation cell adhesion cell-cell adhesion regulation of cell-cell adhesion T cell proliferation regulation of lymphocyte proliferation negative regulation of cell population proliferation regulation of cell adhesion regulation of T cell activation regulation of T cell proliferation regulation of mononuclear cell proliferation regulation of lymphocyte activation positive regulation of biological process positive regulation of leukocyte cell-cell adhesion positive regulation of cell-cell adhesion positive regulation of lymphocyte activation positive regulation of cell activation negative regulation of T cell costimulation positive regulation of leukocyte activation positive regulation of immune system process positive regulation of cellular process positive regulation of T cell activation positive regulation of cell adhesion regulation of T cell costimulation lymphocyte costimulation positive regulation of multicellular organismal process T cell costimulation myeloid leukocyte differentiation regulation of leukocyte differentiation cellular developmental process regulation of developmental process cell development regulation of cell differentiation regulation of cell development regulation of osteoclast differentiation multicellular organism development cell differentiation osteoclast differentiation anatomical structure development negative regulation of cell differentiation negative regulation of hemopoiesis developmental process regulation of multicellular organismal development negative regulation of leukocyte differentiation hemopoiesis regulation of myeloid cell differentiation negative regulation of developmental process regulation of myeloid leukocyte differentiation negative regulation of myeloid cell differentiation negative regulation of osteoclast differentiation negative regulation of myeloid leukocyte differentiation negative regulation of cell development myeloid cell differentiation regulation of hemopoiesis leukocyte differentiation mononuclear cell differentiation lymphocyte differentiation negative regulation of T cell differentiation T cell differentiation negative regulation of lymphocyte differentiation regulation of T cell differentiation regulation of cytotoxic T cell differentiation regulation of lymphocyte differentiation cytotoxic T cell differentiation negative regulation of cytotoxic T cell differentiation negative regulation of chemokine production regulation of chemokine production chemokine production immune system development regulation of T cell anergy lymphocyte anergy regulation of lymphocyte anergy positive regulation of lymphocyte anergy positive regulation of T cell tolerance induction positive regulation of T cell anergy regulation of T cell tolerance induction T cell anergy system development T cell tolerance induction regulation of tolerance induction positive regulation of tolerance induction tolerance induction immune response-regulating cell surface receptor signaling pathway regulation of antigen receptor-mediated signaling pathway negative regulation of antigen receptor-mediated signaling pathway positive regulation of response to stimulus immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response immune response-activating cell surface receptor signaling pathway regulation of T cell receptor signaling pathway T cell receptor signaling pathway negative regulation of T cell receptor signaling pathway regulation of immune response antigen receptor-mediated signaling pathway activation of immune response regulation of type II interferon production type II interferon production negative regulation of type II interferon production Fc receptor mediated inhibitory signaling pathway immune response-inhibiting cell surface receptor signaling pathway immune response-inhibiting signal transduction regulation of activated T cell proliferation activated T cell proliferation negative regulation of activated T cell proliferation IP-10 production negative regulation of IP-10 production regulation of IP-10 production negative regulation of canonical NF-kappaB signal transduction intracellular signaling cassette canonical NF-kappaB signal transduction regulation of canonical NF-kappaB signal transduction negative regulation of interleukin-5 production regulation of interleukin-5 production interleukin-5 production positive regulation of T cell differentiation positive regulation of developmental process positive regulation of cell development positive regulation of regulatory T cell differentiation positive regulation of hemopoiesis positive regulation of cell differentiation regulation of regulatory T cell differentiation regulatory T cell differentiation positive regulation of leukocyte differentiation positive regulation of lymphocyte differentiation interleukin-1 production regulation of interleukin-1 beta production negative regulation of interleukin-1 beta production negative regulation of interleukin-1 production regulation of interleukin-1 production interleukin-1 beta production negative regulation of interleukin-10 production interleukin-10 production regulation of interleukin-10 production negative regulation of miRNA transcription RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process miRNA transcription regulation of miRNA metabolic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process miRNA metabolic process regulation of RNA biosynthetic process negative regulation of DNA-templated transcription primary metabolic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process negative regulation of miRNA metabolic process regulation of DNA-templated transcription negative regulation of RNA metabolic process regulation of miRNA transcription regulation of MAPK cascade MAPK cascade negative regulation of MAPK cascade interleukin-10-mediated signaling pathway adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity regulation of immune effector process T cell mediated immunity negative regulation of lymphocyte mediated immunity T cell cytokine production leukocyte mediated immunity regulation of T cell mediated immunity negative regulation of cytokine production involved in immune response regulation of cytokine production involved in immune response regulation of adaptive immune response negative regulation of immune response negative regulation of immune effector process negative regulation of adaptive immune response immune effector process negative regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains regulation of leukocyte mediated immunity negative regulation of production of molecular mediator of immune response regulation of production of molecular mediator of immune response negative regulation of T cell mediated immunity negative regulation of T cell cytokine production regulation of T cell cytokine production regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains cytokine production involved in immune response production of molecular mediator of immune response regulation of lymphocyte mediated immunity negative regulation of leukocyte mediated immunity regulation of localization regulation of protein localization regulation of protein localization to nucleus protein localization to nucleus negative regulation of protein localization to nucleus macromolecule localization protein localization to organelle intracellular protein localization negative regulation of protein localization CD8-positive, alpha-beta T cell activation regulation of alpha-beta T cell activation positive regulation of CD8-positive, alpha-beta T cell activation alpha-beta T cell activation positive regulation of alpha-beta T cell activation positive regulation of alpha-beta T cell differentiation CD8-positive, alpha-beta T cell differentiation regulation of alpha-beta T cell differentiation alpha-beta T cell differentiation positive regulation of CD8-positive, alpha-beta T cell differentiation regulation of CD8-positive, alpha-beta T cell differentiation regulation of CD8-positive, alpha-beta T cell activation regulation of cytokine production involved in inflammatory response response to stress negative regulation of cytokine production involved in inflammatory response production of molecular mediator involved in inflammatory response defense response cytokine production involved in inflammatory response inflammatory response	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle cell surface cell periphery plasma membrane membrane cytoplasmic side of plasma membrane extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle cell surface cell periphery plasma membrane membrane cytoplasmic side of plasma membrane cytoplasmic side of membrane side of membrane
C, E, G, I [auth L]	h128-3 Fab light chain	-	-	-
B, D, F, H	h128-3 Fab heavy chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, J [auth P], K [auth R], L [auth Q]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A, J [auth P], K [auth R], L [auth Q]	IPR050412	Immunoglobulin-like Receptors in Immune Regulation	Family
A, J [auth P], K [auth R], L [auth Q]	IPR013151	Immunoglobulin-like beta-sandwich domain	Domain
A, J [auth P], K [auth R], L [auth Q]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, J [auth P], K [auth R], L [auth Q]	IPR007110	Immunoglobulin-like domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, J [auth P], K [auth R], L [auth Q]	Pharos: Q8NHJ6	chronic obstructive pulmonary disease interstitial cystitis osteosarcoma psoriasis cutaneous lupus erythematosus invasive ductal breast carcinoma peripheral nervous system disease tuberculosis head and neck cancer lung carcinoma peripheral neuropathy

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.