5OJ6 | pdb_00005oj6

Crystal structure of the chicken MDGA1 ectodomain in complex with the human neuroligin 1 (NL1(-A-B)) cholinesterase domain.

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family 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)
A	COesterase	e5oj6A1	A: a/b three-layered sandwiches	X: alpha/beta-Hydrolases (From Topology)	H: alpha/beta-Hydrolases (From Topology)	T: alpha/beta-Hydrolases	F: COesterase	ECOD (1.6)
B	I-set_5	e5oj6B3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: I-set_5	ECOD (1.6)
B	I-set	e5oj6B5	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: I-set	ECOD (1.6)
B	I-set_2	e5oj6B1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: I-set_2	ECOD (1.6)
B	I-set_4,fn3	e5oj6B6	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: I-set_4,fn3	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.1820	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Alpha/Beta hydrolase fold, catalytic domain	CATH (4.3.0)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00135	Carboxylesterase family (COesterase)	Carboxylesterase family		Domain
B	PF13927	Immunoglobulin domain (Ig_3)	Immunoglobulin domain	This family contains immunoglobulin-like domains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Neuroligin-1	amide binding amyloid-beta binding binding peptide binding protein binding signaling receptor binding neurexin family protein binding identical protein binding molecular transducer activity signaling receptor activity PDZ domain binding protein domain specific binding cell adhesion molecule binding scaffold protein binding	cellular response to stimulus positive regulation of cell communication multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process positive regulation of signal transduction response to stimulus signaling modulation of chemical synaptic transmission regulation of system process positive regulation of excitatory postsynaptic potential positive regulation of biological process regulation of signal transduction chemical synaptic transmission, postsynaptic cellular response to stimulus positive regulation of cell communication multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process positive regulation of signal transduction response to stimulus signaling modulation of chemical synaptic transmission regulation of system process positive regulation of excitatory postsynaptic potential positive regulation of biological process regulation of signal transduction chemical synaptic transmission, postsynaptic cell communication positive regulation of response to stimulus synaptic signaling modulation of excitatory postsynaptic potential regulation of multicellular organismal process signal transduction regulation of biological quality positive regulation of cellular process trans-synaptic signaling regulation of biological process regulation of signaling cell surface receptor signaling pathway nervous system process biological regulation cell-cell signaling chemical synaptic transmission regulation of nervous system process regulation of trans-synaptic signaling regulation of response to stimulus anterograde trans-synaptic signaling regulation of cell communication cellular process excitatory postsynaptic potential regulation of membrane potential positive regulation of signaling membrane organization cellular localization postsynapse organization AMPA glutamate receptor clustering glutamate receptor clustering neurotransmitter-gated ion channel clustering localization within membrane protein localization to membrane cellular component organization localization cell junction organization receptor clustering macromolecule localization cellular component organization or biogenesis synapse organization intracellular protein localization postsynaptic membrane organization membrane biogenesis presynaptic membrane assembly cellular component biogenesis presynaptic membrane organization multicellular organism development cellular component assembly cell junction assembly anatomical structure development system development developmental process presynapse organization nervous system development membrane assembly neurexin clustering involved in presynaptic membrane assembly synapse assembly presynapse assembly heterophilic cell-cell adhesion cell adhesion cell-cell adhesion organelle organization postsynaptic density protein 95 clustering postsynaptic density organization postsynaptic specialization organization regulation of developmental process cellular developmental process cell projection organization positive regulation of dendritic spine development cell development regulation of dendritic spine development neuron projection development positive regulation of developmental process neurogenesis neuron differentiation dendrite development cell differentiation dendritic spine development plasma membrane bounded cell projection organization generation of neurons neuron development cellular response to metal ion cellular response to chemical stimulus response to metal ion response to chemical cellular response to calcium ion response to calcium ion positive regulation of neuromuscular synaptic transmission regulation of neuromuscular synaptic transmission positive regulation of synaptic transmission neuromuscular synaptic transmission neuron cell-cell adhesion positive regulation of intracellular signal transduction intracellular signal transduction regulation of intracellular signal transduction establishment of protein localization protein targeting establishment of localization regulation of localization regulated exocytosis positive regulation of neurotransmitter secretion synaptic vesicle cycle synaptic vesicle exocytosis vesicle-mediated transport vesicle-mediated transport in synapse positive regulation of regulated secretory pathway establishment of localization in cell positive regulation of neurotransmitter transport neurotransmitter secretion regulation of synaptic vesicle exocytosis neurotransmitter transport regulation of secretion signal release from synapse exocytosis transport positive regulation of secretion by cell positive regulation of exocytosis regulation of regulated secretory pathway regulation of secretion by cell secretion by cell positive regulation of secretion signal release positive regulation of synaptic vesicle exocytosis regulation of transport secretion regulation of neurotransmitter transport export from cell regulation of vesicle-mediated transport positive regulation of transport regulation of neurotransmitter secretion regulation of exocytosis cortical cytoskeleton organization cytoskeleton organization cytoskeletal matrix organization at active zone ligand-gated ion channel signaling pathway ionotropic glutamate receptor signaling pathway glutamate receptor signaling pathway NMDA selective glutamate receptor signaling pathway NMDA glutamate receptor clustering calcium-dependent cell-cell adhesion regulation of cellular component organization positive regulation of cellular component organization ruffle organization plasma membrane bounded cell projection assembly ruffle assembly positive regulation of cell projection organization positive regulation of cellular component biogenesis regulation of cell projection organization regulation of cell projection assembly regulation of cellular component biogenesis positive regulation of ruffle assembly regulation of plasma membrane bounded cell projection assembly regulation of ruffle assembly cell projection assembly regulation of plasma membrane bounded cell projection organization positive regulation of plasma membrane bounded cell projection assembly excitatory synapse assembly terminal button organization positive regulation of nervous system development regulation of nervous system development regulation of synapse structure or activity regulation of synapse assembly regulation of multicellular organismal development regulation of cell junction assembly positive regulation of cell junction assembly regulation of synapse organization positive regulation of multicellular organismal process positive regulation of synapse assembly synaptic transmission, glutamatergic regulation of synaptic transmission, glutamatergic positive regulation of synaptic transmission, glutamatergic positive regulation of synaptic transmission, GABAergic synaptic transmission, GABAergic regulation of synaptic transmission, GABAergic protein localization to synapse protein localization to cell junction receptor localization to synapse plasma membrane bounded cell projection morphogenesis cell morphogenesis cell projection morphogenesis neuron projection morphogenesis anatomical structure morphogenesis vesicle localization synaptic vesicle clustering organelle localization synaptic vesicle localization negative regulation of biological process negative regulation of dendritic spine morphogenesis dendritic spine morphogenesis dendritic spine organization negative regulation of cellular component organization regulation of postsynapse organization regulation of neuron projection development negative regulation of dendritic spine development negative regulation of cellular process negative regulation of cell projection organization regulation of anatomical structure morphogenesis negative regulation of developmental process dendrite morphogenesis cell morphogenesis involved in neuron differentiation negative regulation of neuron projection development regulation of dendritic spine morphogenesis neuron projection organization regulation of cell differentiation regulation of neuron differentiation rhythmic process AMPA selective glutamate receptor signaling pathway filopodium assembly regulation of filopodium assembly positive regulation of filopodium assembly postsynaptic membrane assembly postsynapse assembly neuron projection arborization circadian sleep/wake cycle rhythmic behavior circadian rhythm regulation of circadian sleep/wake cycle regulation of circadian sleep/wake cycle, wakefulness regulation of circadian rhythm behavior regulation of behavior circadian behavior positive regulation of behavior positive regulation of circadian rhythm circadian sleep/wake cycle, wakefulness positive regulation of circadian sleep/wake cycle, wakefulness circadian sleep/wake cycle process establishment of organelle localization synaptic vesicle targeting vesicle targeting establishment of vesicle localization exocytic process neuronal signal transduction import into cell positive regulation of synaptic vesicle recycling regulation of synaptic vesicle recycling presynaptic endocytosis synaptic vesicle recycling positive regulation of endocytosis regulation of synaptic vesicle endocytosis positive regulation of synaptic vesicle endocytosis regulation of endocytosis synaptic vesicle endocytosis endocytosis	cell periphery postsynapse cellular anatomical structure postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region synaptic membrane protein complex involved in cell-cell adhesion protein-containing complex protein complex involved in cell adhesion synaptic cleft cell periphery postsynapse cellular anatomical structure postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region synaptic membrane protein complex involved in cell-cell adhesion protein-containing complex protein complex involved in cell adhesion synaptic cleft extracellular region somatodendritic compartment cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection glutamatergic synapse receptor complex neuromuscular junction membrane-bounded organelle intracellular organelle intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system neuron spine dendritic spine neuron to neuron synapse asymmetric synapse excitatory synapse asymmetric, glutamatergic, excitatory synapse cell surface filopodium tip actin-based cell projection filopodium postsynaptic specialization membrane postsynaptic specialization presynapse GABA-ergic synapse postsynaptic density
B	MAM domain-containing glycosylphosphatidylinositol anchor protein 1	-	developmental process multicellular organismal process neuron migration cellular developmental process nervous system development generation of neurons neurogenesis multicellular organism development cell differentiation anatomical structure development cellular process cell migration cell motility system development	cellular anatomical structure membrane side of membrane cell periphery plasma membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR051093	Neuroligin and Bile salt-activated lipase	Family
A	IPR002018	Carboxylesterase, type B	Domain
A	IPR019819	Carboxylesterase type B, conserved site	Conserved Site
A	IPR000460	Neuroligin	Family
A	IPR029058	Alpha/Beta hydrolase fold	Homologous Superfamily
B	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
B	IPR003598	Immunoglobulin subtype 2	Domain
B	IPR003961	Fibronectin type III	Domain
B	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
B	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
B	IPR000998	MAM domain	Domain
B	IPR003599	Immunoglobulin domain subtype	Domain
B	IPR007110	Immunoglobulin-like domain	Domain
B	IPR050958	Cell Adhesion and Cytoskeletal Organization	Family
B	IPR036116	Fibronectin type III superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q8N2Q7	autism attention deficit hyperactivity disorder, inattentive type Autistic Disorder ductal breast carcinoma in situ invasive ductal breast carcinoma malignant colon neoplasm medulloblastoma pituitary cancer bipolar disorder endogenous depression large cell medulloblastoma malignant ependymoma ovarian cancer schizophrenia autism spectrum disorder autism attention deficit hyperactivity disorder, inattentive type Autistic Disorder ductal breast carcinoma in situ invasive ductal breast carcinoma malignant colon neoplasm medulloblastoma pituitary cancer bipolar disorder endogenous depression large cell medulloblastoma malignant ependymoma ovarian cancer schizophrenia autism spectrum disorder breast cancer interstitial cystitis lung carcinoma malignant mesothelioma pilocytic astrocytoma

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.