6PNP

Crystal structure of the splice insert-free neurexin-1 LNS2 domain in complex with neurexophilin-1

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d6pnpa1	All beta proteins	Concanavalin A-like lectins/glucanases	Concanavalin A-like lectins/glucanases	Laminin G-like module	automated matches	Mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d6pnpa3	Artifacts	Tags	Tags	Tags	C-terminal Tags	Mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d6pnpa2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Mouse (Mus musculus ) [TaxId: 10090 ],	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	PF02210	e6pnpA1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Concanavalin A-like lectins/glucanases	F: PF02210	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.200	Mainly Beta	Sandwich	Jelly Rolls		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF02210	Laminin G domain (Laminin_G_2)	Laminin G domain	This family includes the Thrombospondin N-terminal-like domain, a Laminin G subfamily.	Domain
B	PF06312	Neurexophilin (Neurexophilin)	Neurexophilin	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Neurexin-1	channel regulator activity ion channel regulator activity calcium channel regulator activity molecular function regulator activity transporter regulator activity protein-containing complex binding binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity cation binding ion binding calcium ion binding metal ion binding channel regulator activity ion channel regulator activity calcium channel regulator activity molecular function regulator activity transporter regulator activity protein-containing complex binding binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity cation binding ion binding calcium ion binding metal ion binding small molecule binding protein binding signaling receptor binding fibroblast growth factor receptor binding growth factor receptor binding type 1 fibroblast growth factor receptor binding cell adhesion molecule binding acetylcholine receptor binding neuroligin family 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 behavior learning learning or memory cognition imitative learning auditory behavior vocal learning learned vocalization behavior or vocal learning response to mechanical stimulus response to external stimulus mechanosensory behavior response to auditory stimulus observational learning response to abiotic stimulus regulation of cellular component organization positive regulation of cellular component organization regulation of developmental process cellular component organization positive regulation of developmental process multicellular organism development anatomical structure development regulation of synapse structure or activity synapse organization cellular component organization or biogenesis system development developmental process nervous system development developmental maturation synapse maturation regulation of synapse organization regulation of synapse maturation cell junction organization positive regulation of synapse maturation cellular biosynthetic process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process organic substance metabolic process positive regulation of biosynthetic process organic substance biosynthetic process positive regulation of macromolecule metabolic process regulation of biosynthetic process cellular metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular biosynthetic process protein localization cellular localization postsynaptic membrane assembly membrane biogenesis cellular component biogenesis localization cellular component assembly cell junction assembly receptor clustering cellular macromolecule localization postsynaptic membrane organization membrane organization postsynapse organization postsynapse assembly neuroligin clustering involved in postsynaptic membrane assembly localization within membrane protein localization to membrane membrane assembly macromolecule localization synapse assembly positive regulation of phosphorylation regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process regulation of peptidyl-serine phosphorylation positive regulation of phosphate metabolic process peptidyl-serine modification regulation of primary metabolic process positive regulation of protein modification process peptidyl-serine phosphorylation regulation of phosphate metabolic process phosphate-containing compound metabolic process peptidyl-amino acid modification protein metabolic process positive regulation of protein phosphorylation phosphorus metabolic process protein modification process organonitrogen compound metabolic process protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process primary metabolic process positive regulation of peptidyl-serine phosphorylation macromolecule modification regulation of phosphorus metabolic process regulation of phosphorylation organelle organization postsynaptic density protein 95 clustering postsynaptic density organization postsynaptic specialization organization regulation of behavior regulation of grooming behavior grooming behavior regulation of postsynaptic specialization assembly organelle assembly postsynaptic specialization assembly regulation of cellular component biogenesis regulation of organelle organization regulation of organelle assembly cellular response to inorganic substance cellular response to metal ion response to inorganic substance cellular response to chemical stimulus response to metal ion response to chemical cellular response to calcium ion response to calcium ion response to fibroblast growth factor cellular response to growth factor stimulus positive regulation of fibroblast growth factor receptor signaling pathway cell surface receptor protein tyrosine kinase signaling pathway cellular response to endogenous stimulus enzyme-linked receptor protein signaling pathway response to endogenous stimulus regulation of cellular response to growth factor stimulus fibroblast growth factor receptor signaling pathway response to growth factor cellular response to fibroblast growth factor stimulus regulation of fibroblast growth factor receptor signaling pathway startle response regulation of response to external stimulus neuromuscular process negative regulation of response to stimulus negative regulation of biological process prepulse inhibition negative regulation of response to external stimulus regulation of excitatory synapse assembly regulation of synapse assembly regulation of postsynaptic density organization regulation of postsynapse organization excitatory synapse assembly regulation of cell junction assembly postsynaptic density assembly regulation of postsynaptic density assembly intracellular signal transduction regulation of intracellular signal transduction positive regulation of intracellular signal transduction regulation of protein kinase A signaling protein kinase A signaling positive regulation of protein kinase A signaling plasma membrane bounded cell projection organization cellular developmental process cell projection organization cell development neuron projection development generation of neurons neurogenesis neuron differentiation cell differentiation neuron development regulation of localization transport regulation of transport regulation of synaptic vesicle cycle synaptic vesicle cycle regulation of vesicle-mediated transport establishment of localization vesicle-mediated transport vesicle-mediated transport in synapse establishment of localization in cell presynapse organization presynapse assembly positive regulation of nervous system development regulation of nervous system development regulation of multicellular organismal development positive regulation of cellular component biogenesis positive regulation of cell junction assembly positive regulation of multicellular organismal process positive regulation of synapse assembly positive regulation of ERK1 and ERK2 cascade intracellular signaling cassette positive regulation of MAPK cascade regulation of MAPK cascade MAPK cascade ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade synaptic transmission, glutamatergic regulation of synaptic transmission, glutamatergic positive regulation of synaptic transmission positive regulation of synaptic transmission, glutamatergic neurotransmitter secretion secretion export from cell neurotransmitter transport signal release from synapse secretion by cell signal release cell adhesion cell-cell adhesion synaptic membrane adhesion cell-cell adhesion via plasma-membrane adhesion molecules regulation of presynapse assembly regulation of presynapse organization trans-synaptic signaling, modulating synaptic transmission trans-synaptic signaling by endocannabinoid regulation of trans-synaptic signaling by endocannabinoid, modulating synaptic transmission trans-synaptic signaling by lipid, modulating synaptic transmission trans-synaptic signaling by lipid trans-synaptic signaling by endocannabinoid, modulating synaptic transmission adult behavior neuromuscular process controlling balance regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction phosphatidylinositol 3-kinase/protein kinase B signal transduction biological process involved in intraspecies interaction between organisms social behavior negative regulation of cellular metabolic process negative regulation of cellular process negative regulation of macromolecule metabolic process negative regulation of metabolic process negative regulation of cellular biosynthetic process negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process vocalization behavior protein localization to synapse gephyrin clustering involved in postsynaptic density assembly protein localization to cell junction	membrane-bounded organelle intracellular anatomical structure nuclear membrane membrane nucleus cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle nuclear envelope organelle membrane protein complex involved in cell-cell adhesion membrane-bounded organelle intracellular anatomical structure nuclear membrane membrane nucleus cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle nuclear envelope organelle membrane protein complex involved in cell-cell adhesion protein-containing complex protein complex involved in cell adhesion cell periphery presynapse synapse cell junction plasma membrane presynaptic membrane plasma membrane region synaptic membrane intracellular vesicle cytoplasmic vesicle cytoplasm vesicle endocytic vesicle glutamatergic synapse somatodendritic compartment cell body neuronal cell body membrane-enclosed lumen nucleolus intracellular organelle lumen organelle lumen intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle cell surface GABA-ergic synapse presynaptic active zone membrane presynaptic active zone Schaffer collateral - CA1 synapse cell projection endoplasmic reticulum
B	Neurexophilin-1	protein binding binding signaling receptor binding	-	extracellular region cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
A	IPR000742	EGF-like domain	Domain
A	IPR001791	Laminin G domain	Domain
A	IPR000152	EGF-type aspartate/asparagine hydroxylation site	PTM
A	IPR003585	Neurexin/syndecan/glycophorin C	Domain
B	IPR010450	Neurexophilin	Family
B	IPR026845	Neurexophilin/NXPE	Family

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.