4LDL | pdb_00004ldl

Structure of beta2 adrenoceptor bound to hydroxybenzylisoproterenol and an engineered nanobody

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 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
Membrane Protein Annotation: PDBTM

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d4ldlb1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	llama (Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
B	d4ldlb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	llama (Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	G protein-coupled receptor-like	8091150	3000473	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Lysozyme-like	8033861	3001879	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	7tm_1_3	e4ldlA3	A: alpha bundles	X: Family A G protein-coupled receptor-like (From Topology)	H: Family A G protein-coupled receptor-like (From Topology)	T: Family A G protein-coupled receptor-like	F: 7tm_1_3	ECOD (1.6)
A	Phage_lysozyme_2	e4ldlA2	A: a+b complex topology	X: Lysozyme-like (From Homology)	H: Lysozyme-like	T: Lysozyme-like	F: Phage_lysozyme_2	ECOD (1.6)
B	V-set_1	e4ldlB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.530.40	Mainly Alpha	Orthogonal Bundle	Lysozyme		CATH (4.3.0)
A	1.20.1070.10	Mainly Alpha	Up-down Bundle	Rhopdopsin 7-helix transmembrane proteins	Rhodopsin 7-helix transmembrane proteins	CATH (4.3.0)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	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
B	Camelid Antibody Fragment	VH	Lama glama (llama)	IGHV3S301, IGHJ401	V-DOMAIN VH	IG	(VH)	IMGT (202540-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B	Heavy Chain	IGHV1	-	lysozyme, beta-2 adrenergic receptor	SAbDab (2025-10-17)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00959	Phage lysozyme (Phage_lysozyme)	Phage lysozyme	This family includes lambda phage lysozyme and E. coli endolysin.	Domain
A	PF00001	7 transmembrane receptor (rhodopsin family) (7tm_1)	7 transmembrane receptor (rhodopsin family)	This family contains, amongst other G-protein-coupled receptors (GCPRs), members of the opsin family, which have been considered to be typical members of the rhodopsin superfamily. They share several motifs, mainly the seven transmembrane helices, GC ...	This family contains, amongst other G-protein-coupled receptors (GCPRs), members of the opsin family, which have been considered to be typical members of the rhodopsin superfamily. They share several motifs, mainly the seven transmembrane helices, GCPRs of the rhodopsin superfamily. All opsins bind a chromophore, such as 11-cis-retinal. The function of most opsins other than the photoisomerases is split into two steps: light absorption and G-protein activation. Photoisomerases, on the other hand, are not coupled to G-proteins - they are thought to generate and supply the chromophore that is used by visual opsins [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Lysozyme, Beta-2 adrenergic receptor	hydrolase activity, acting on glycosyl bonds peptidoglycan muralytic activity hydrolase activity, hydrolyzing O-glycosyl compounds lysozyme activity hydrolase activity catalytic activity amide binding amyloid-beta binding binding peptide binding protein binding enzyme binding adenylate cyclase binding G protein-coupled amine receptor activity hydrolase activity, acting on glycosyl bonds peptidoglycan muralytic activity hydrolase activity, hydrolyzing O-glycosyl compounds lysozyme activity hydrolase activity catalytic activity amide binding amyloid-beta binding binding peptide binding protein binding enzyme binding adenylate cyclase binding G protein-coupled amine receptor activity molecular transducer activity beta2-adrenergic receptor activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity beta-adrenergic receptor activity adrenergic receptor activity protein-containing complex binding potassium channel regulator activity channel regulator activity ion channel regulator activity molecular function regulator activity transporter regulator activity identical protein binding protein homodimerization activity protein dimerization activity cation binding ion binding catecholamine binding norepinephrine binding small molecule binding	defense response to bacterium biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response response to bacterium response to stress response to external stimulus response to external biotic stimulus response to biotic stimulus carbohydrate derivative catabolic process catabolic process peptidoglycan catabolic process glycosaminoglycan metabolic process defense response to bacterium biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response response to bacterium response to stress response to external stimulus response to external biotic stimulus response to biotic stimulus carbohydrate derivative catabolic process catabolic process peptidoglycan catabolic process glycosaminoglycan metabolic process carbohydrate derivative metabolic process aminoglycan catabolic process macromolecule catabolic process glycosaminoglycan catabolic process aminoglycan metabolic process peptidoglycan metabolic process metabolic process cellular process macromolecule metabolic process symbiont-mediated cytolysis of host cell viral life cycle disruption of cell in another organism cytolysis biological process involved in interaction with host biological process involved in symbiotic interaction viral release from host cell by cytolysis exit from host cell viral process cytolysis in another organism viral release from host cell disruption of anatomical structure in another organism symbiont-mediated killing of host cell killing of cells of another organism cell killing cell wall organization or biogenesis cell wall macromolecule catabolic process cell wall macromolecule metabolic process multicellular organismal process response to nutrient levels homeostatic process adaptive thermogenesis multicellular organismal-level homeostasis response to dietary excess diet induced thermogenesis energy homeostasis response to abiotic stimulus response to cold response to temperature stimulus regulation of developmental process positive regulation of biological process regulation of biomineral tissue development regulation of bone mineralization positive regulation of ossification positive regulation of developmental process multicellular organism development positive regulation of biomineral tissue development ossification anatomical structure development biomineral tissue development regulation of multicellular organismal process developmental process regulation of multicellular organismal development regulation of biological process bone mineralization animal organ development biological regulation tissue development positive regulation of bone mineralization positive regulation of multicellular organismal process regulation of ossification regulation of multicellular organism growth regulation of growth regulation of developmental growth negative regulation of multicellular organism growth developmental growth negative regulation of developmental process growth negative regulation of biological process multicellular organism growth negative regulation of developmental growth negative regulation of growth negative regulation of multicellular organismal process cellular response to stimulus adenylate cyclase-activating adrenergic receptor signaling pathway regulation of cellular process signaling adenylate cyclase-activating G protein-coupled receptor signaling pathway cell communication adrenergic receptor signaling pathway adenylate cyclase-modulating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway signal transduction fat cell differentiation cellular developmental process brown fat cell differentiation cell differentiation system process regulation of system process muscle contraction muscle system process regulation of muscle system process negative regulation of muscle contraction smooth muscle contraction regulation of smooth muscle contraction regulation of muscle contraction negative regulation of smooth muscle contraction positive regulation of DNA-templated transcription RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II primary metabolic process regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process tissue remodeling bone remodeling anatomical structure homeostasis tissue homeostasis bone resorption localization import into cell transport receptor-mediated endocytosis endocytosis establishment of localization vesicle-mediated transport cellular localization endosome to lysosome transport intracellular transport lysosomal transport establishment of localization in cell vacuolar transport positive regulation of organelle organization regulation of cellular component organization positive regulation of cellular component organization regulation of autophagosome maturation macroautophagy autophagy protein-containing complex disassembly regulation of autophagy regulation of protein-containing complex disassembly cellular component organization autophagosome maturation cellular component organization or biogenesis positive regulation of macroautophagy process utilizing autophagic mechanism positive regulation of protein-containing complex disassembly cellular component disassembly positive regulation of autophagy protein-containing complex organization regulation of catabolic process positive regulation of autophagosome maturation regulation of organelle organization positive regulation of catabolic process organelle organization regulation of macroautophagy lipophagy positive regulation of lipophagy regulation of lipophagy response to psychosocial stress regulation of cold-induced thermogenesis cold-induced thermogenesis temperature homeostasis positive regulation of cold-induced thermogenesis positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction intracellular signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette regulation of signaling positive regulation of MAPK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade regulation of response to stimulus MAPK cascade regulation of cell communication positive regulation of signaling cell surface receptor signaling pathway ligand-gated ion channel signaling pathway ionotropic glutamate receptor signaling pathway glutamate receptor signaling pathway AMPA selective glutamate receptor signaling pathway regulation of tube diameter regulation of systemic arterial blood pressure mediated by a chemical signal regulation of blood pressure regulation of tube size norepinephrine-epinephrine-mediated vasodilation involved in regulation of systemic arterial blood pressure negative regulation of blood pressure regulation of systemic arterial blood pressure by norepinephrine-epinephrine regulation of systemic arterial blood pressure circulatory system process negative regulation of systemic arterial blood pressure vascular process in circulatory system regulation of biological quality blood vessel diameter maintenance vasodilation blood circulation regulation of anatomical structure size negative regulation of signaling negative regulation of response to stimulus negative regulation of signal transduction negative regulation of G protein-coupled receptor signaling pathway negative regulation of cell communication negative regulation of cellular process regulation of G protein-coupled receptor signaling pathway positive regulation of cAMP/PKA signal transduction cAMP/PKA signal transduction regulation of cAMP/PKA signal transduction cellular response to nitrogen compound response to oxygen-containing compound response to nitrogen compound cellular response to amyloid-beta cellular response to oxygen-containing compound cellular response to chemical stimulus response to chemical response to amyloid-beta regulation of localization regulation of transport regulation of monoatomic ion transport regulation of sodium ion transport metal ion transport monoatomic ion transport regulation of metal ion transport monoatomic cation transport sodium ion transport heat generation regulation of postsynaptic membrane potential modulation of chemical synaptic transmission positive regulation of excitatory postsynaptic potential chemical synaptic transmission, postsynaptic synaptic signaling modulation of excitatory postsynaptic potential mini excitatory postsynaptic potential trans-synaptic signaling nervous system process cell-cell signaling chemical synaptic transmission regulation of nervous system process regulation of mini excitatory postsynaptic potential positive regulation of mini excitatory postsynaptic potential regulation of trans-synaptic signaling anterograde trans-synaptic signaling excitatory postsynaptic potential regulation of membrane potential	host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part membrane membrane-bounded organelle intracellular anatomical structure dense core granule intracellular vesicle intracellular membrane-bounded organelle endomembrane system host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part membrane membrane-bounded organelle intracellular anatomical structure dense core granule intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle neuronal dense core vesicle bounding membrane of organelle vesicle membrane clathrin-coated vesicle endocytic vesicle membrane coated vesicle endocytic vesicle clathrin-coated vesicle membrane clathrin-coated endocytic vesicle membrane clathrin-coated endocytic vesicle cytoplasmic vesicle membrane coated vesicle membrane organelle membrane protein-containing complex receptor complex intercellular bridge Golgi apparatus endosome membrane endosome intracellular membraneless organelle cilium plasma membrane bounded cell projection ciliary basal body cell projection microtubule organizing center cytoskeleton membraneless organelle microtubule cytoskeleton cell periphery apical part of cell plasma membrane plasma membrane region apical plasma membrane mitotic spindle spindle lytic vacuole vacuole lysosome early endosome nucleus
B	Camelid Antibody Fragment	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR052619	Bacteriophage lysozyme-like	Family
A	IPR001165	T4-type lysozyme	Family
A	IPR034690	Endolysin T4 type	Family
A	IPR002196	Glycoside hydrolase, family 24	Family
A	IPR023347	Lysozyme domain superfamily	Homologous Superfamily
A	IPR023346	Lysozyme-like domain superfamily	Homologous Superfamily
A	IPR000332	Beta 2 adrenoceptor	Family
A	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
A	IPR002233	Adrenoceptor family	Family
A	IPR017452	GPCR, rhodopsin-like, 7TM	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P07550	asthma cardiomyopathy dilated cardiomyopathy Ventricular Dysfunction, Left prostate cancer HIV infectious disease nervous system disorder AIDS dementia complex chronic obstructive pulmonary disease potassium deficiency disease lung disease obesity disorder essential tremor bipolar disorder ovarian cancer asthma cardiomyopathy dilated cardiomyopathy Ventricular Dysfunction, Left prostate cancer HIV infectious disease nervous system disorder AIDS dementia complex chronic obstructive pulmonary disease potassium deficiency disease lung disease obesity disorder essential tremor bipolar disorder ovarian cancer familial hyperlipidemia breast fibroadenoma peripheral nervous system disease lung adenocarcinoma glaucoma cardiac arrest hereditary diffuse gastric adenocarcinoma pulmonary emphysema hypertensive disorder inherited susceptibility to asthma dilated cardiomyopathy 1A atrial fibrillation ocular hypertension breast cancer Parkinson disease peripheral neuropathy fibromyalgia vasomotor rhinitis bronchiectasis gastric cancer viral encephalitis lung cancer malignant colon neoplasm seasonal allergic rhinitis hypertrophic cardiomyopathy allergic rhinitis myocardial ischemia non-small cell lung carcinoma dry eye syndrome intrinsic asthma atrioventricular block open-angle glaucoma B-cell chronic lymphocytic leukemia osteosarcoma breast carcinoma bronchitis gastric neoplasm hemangioma malignant ependymoma psoriasis medulloblastoma rhinitis hyperlipidemia allergic asthma monogenic obesity anaphylaxis common cold coronary artery disease atopic conjunctivitis ductal breast carcinoma in situ invasive ductal breast carcinoma autism

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A	PDBTM	Annotated as membrane protein by PDBTM

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.