5KC8 | pdb_00005kc8

Crystal structure of the amino-terminal domain (ATD) of iGluR Delta-2 (GluD2)

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
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d5kc8a_	Alpha and beta proteins (a/b)	Periplasmic binding protein-like I	Periplasmic binding protein-like I	automated matches	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	ANF_receptor_1st	e5kc8A1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: ANF_receptor_1st	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01094	Receptor family ligand binding region (ANF_receptor)	Receptor family ligand binding region	This family includes extracellular ligand binding domains of a wide range of receptors. This family also includes the bacterial amino acid binding proteins of known structure.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Glutamate receptor ionotropic, delta-2	transmitter-gated monoatomic ion channel activity glutamate receptor activity molecular transducer activity gated channel activity monoatomic ion channel activity signaling receptor activity carboxylic acid transmembrane transporter activity glutamate-gated receptor activity neurotransmitter receptor activity ligand-gated channel activity AMPA glutamate receptor activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity amino acid transmembrane transporter activity passive transmembrane transporter activity transmitter-gated monoatomic ion channel activity glutamate receptor activity molecular transducer activity gated channel activity monoatomic ion channel activity signaling receptor activity carboxylic acid transmembrane transporter activity glutamate-gated receptor activity neurotransmitter receptor activity ligand-gated channel activity AMPA glutamate receptor activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity amino acid transmembrane transporter activity passive transmembrane transporter activity channel activity transmembrane signaling receptor activity transmitter-gated channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity protein binding binding PDZ domain binding protein domain specific binding scaffold protein binding transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential postsynaptic neurotransmitter receptor activity neurotransmitter receptor activity involved in regulation of postsynaptic membrane potential cation binding ion binding metal ion binding small molecule binding identical protein binding	developmental process multicellular organismal process nervous system development excitatory synapse assembly cellular component organization cellular component biogenesis multicellular organism development cell junction organization cellular component assembly cell junction assembly anatomical structure development cellular process synapse organization cellular component organization or biogenesis developmental process multicellular organismal process nervous system development excitatory synapse assembly cellular component organization cellular component biogenesis multicellular organism development cell junction organization cellular component assembly cell junction assembly anatomical structure development cellular process synapse organization cellular component organization or biogenesis synapse assembly system development positive regulation of nervous system development regulation of cellular process positive regulation of cellular component organization regulation of cellular component organization regulation of developmental process positive regulation of biological process regulation of nervous system development positive regulation of developmental process regulation of multicellular organismal process regulation of synapse structure or activity regulation of synapse assembly regulation of biological quality positive regulation of cellular process regulation of multicellular organismal development regulation of biological process positive regulation of cellular component biogenesis biological regulation regulation of cellular component biogenesis 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 regulation of postsynaptic membrane neurotransmitter receptor levels localization macromolecule localization intracellular protein localization regulation of presynapse assembly regulation of presynapse organization presynapse organization presynapse assembly neuron apoptotic process regulation of apoptotic process regulation of programmed cell death cell death apoptotic process programmed cell death regulation of neuron apoptotic process cellular response to stimulus cell surface receptor signaling pathway response to stimulus signaling glutamate receptor signaling pathway cell communication signal transduction heterophilic cell-cell adhesion cell adhesion cell-cell adhesion startle response system process nervous system process regulation of response to external stimulus neuromuscular process negative regulation of response to stimulus negative regulation of biological process prepulse inhibition response to external stimulus regulation of response to stimulus negative regulation of response to external stimulus trans-synaptic signaling regulation of signaling modulation of chemical synaptic transmission cell-cell signaling chemical synaptic transmission synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication regulation of postsynaptic membrane potential chemical synaptic transmission, postsynaptic excitatory postsynaptic potential regulation of membrane potential regulation of postsynaptic specialization assembly regulation of excitatory synapse assembly postsynaptic density organization regulation of postsynaptic density organization postsynapse organization organelle assembly postsynaptic specialization assembly postsynapse assembly regulation of postsynapse organization regulation of organelle organization organelle organization regulation of organelle assembly postsynaptic specialization organization postsynaptic density assembly regulation of postsynaptic density assembly synaptic signaling via neuropeptide cerebellar cortex morphogenesis cellular developmental process hindbrain morphogenesis neurogenesis central nervous system neuron differentiation cerebellar granular layer morphogenesis neuron differentiation cell differentiation metencephalon development cerebellar cortex formation cerebellum morphogenesis head development animal organ development brain development cerebellar granular layer development glutamatergic neuron differentiation generation of neurons cerebellar cortex development anatomical structure morphogenesis cerebellum development central nervous system development cerebellar granule cell differentiation anatomical structure formation involved in morphogenesis hindbrain development cerebellar granular layer formation cell differentiation in hindbrain negative regulation of signaling negative regulation of synaptic transmission negative regulation of cell communication positive regulation of long-term synaptic depression negative regulation of cellular process regulation of synaptic plasticity long-term synaptic depression regulation of long-term synaptic depression regulation of neuron projection development cell projection organization cell development neuron projection development plasma membrane bounded cell projection organization regulation of cell projection organization neuron development regulation of plasma membrane bounded cell projection organization synaptic transmission, glutamatergic	postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse cellular anatomical structure neuron to neuron synapse organelle cell junction postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse cellular anatomical structure neuron to neuron synapse organelle cell junction postsynaptic membrane asymmetric synapse plasma membrane region protein-containing complex plasma membrane protein complex membrane protein complex transporter complex receptor complex AMPA glutamate receptor complex ionotropic glutamate receptor complex neurotransmitter receptor complex transmembrane transporter complex plasma membrane signaling receptor complex monoatomic ion channel complex parallel fiber to Purkinje cell synapse excitatory synapse glutamatergic synapse trans-synaptic protein complex neuron spine neuron projection dendritic spine plasma membrane bounded cell projection somatodendritic compartment cell projection dendrite dendritic tree

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR001320	Ionotropic glutamate receptor, C-terminal	Domain
A	IPR028082	Periplasmic binding protein-like I	Homologous Superfamily
A	IPR019594	Ionotropic glutamate receptor, L-glutamate and glycine-binding domain	Domain
A	IPR015683	Ionotropic glutamate receptor	Family
A	IPR001508	Ionotropic glutamate receptor, metazoa	Family
A	IPR001828	Receptor, ligand binding region	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: O43424	autosomal recessive spinocerebellar ataxia 18 Ataxias, Hereditary cerebellar ataxia neurodegenerative disease spinocerebellar ataxia type 2 spinocerebellar ataxia type 6 autosomal dominant cerebellar ataxia colorectal cancer psoriasis spinocerebellar ataxia type 4 spinocerebellar ataxia type 7 intellectual disability spinocerebellar ataxia type 1 spinocerebellar ataxia type 5

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.