8BN2 | pdb_00008bn2

Crystal structure of the ligand-binding domain (LBD) of human iGluR Delta-1 (GluD1) in complex with D-Serine

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
B	Ku_PK_bind	e8bn2B1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ku_PK_bind	ECOD (v294.1)
A	Ku_PK_bind	e8bn2A1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ku_PK_bind	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00060	Ligand-gated ion channel (Lig_chan)	Ligand-gated ion channel	-	Family
A, B	PF10613	Ligated ion channel L-glutamate- and glycine-binding site (Lig_chan-Glu_bd)	Ligated ion channel L-glutamate- and glycine-binding site	This region, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and it binds L-glutamate and glycine [2]. It is found in association with Lig_chan, Pfam:PF ...	This region, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and it binds L-glutamate and glycine [2]. It is found in association with Lig_chan, Pfam:PF00060.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Glutamate receptor ionotropic, delta-1	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 G protein-coupled receptor activity involved in regulation of postsynaptic membrane potential G protein-coupled receptor activity GABA receptor activity transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential identical protein binding protein binding binding	regulation of postsynaptic membrane neurotransmitter receptor levels biological regulation regulation of biological quality regulation of synaptic plasticity trans-synaptic signaling regulation of biological process regulation of signaling regulation of cellular process modulation of chemical synaptic transmission signaling negative regulation of synaptic plasticity cell-cell signaling chemical synaptic transmission cell communication regulation of postsynaptic membrane neurotransmitter receptor levels biological regulation regulation of biological quality regulation of synaptic plasticity trans-synaptic signaling regulation of biological process regulation of signaling regulation of cellular process modulation of chemical synaptic transmission signaling negative regulation of synaptic plasticity cell-cell signaling chemical synaptic transmission cell communication synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication cellular process synaptic signaling via neuropeptide cellular response to stimulus response to stimulus phospholipase C-activating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway signal transduction behavior multicellular organismal process biological process involved in intraspecies interaction between organisms social behavior regulation of cellular component organization postsynapse organization regulation of postsynapse organization cellular component organization regulation of synapse organization cell junction organization regulation of synapse structure or activity synapse organization cellular component organization or biogenesis 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 AMPA glutamate receptor complex ionotropic glutamate receptor complex neurotransmitter receptor complex transmembrane transporter complex plasma membrane signaling receptor complex signaling receptor complex monoatomic ion channel complex extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region vesicle extracellular membrane-bounded organelle GABA-ergic 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, B	IPR001320	Ionotropic glutamate receptor, C-terminal	Domain
A, B	IPR028082	Periplasmic binding protein-like I	Homologous Superfamily
A, B	IPR019594	Ionotropic glutamate receptor, L-glutamate and glycine-binding domain	Domain
A, B	IPR015683	Ionotropic glutamate receptor	Family
A, B	IPR001508	Ionotropic glutamate receptor, metazoa	Family
A, B	IPR001828	Receptor, ligand binding region	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q9ULK0	colorectal cancer attention deficit hyperactivity disorder, inattentive type depressive disorder lung carcinoma Mental Depression atypical teratoid rhabdoid tumor colorectal carcinoma facioscapulohumeral muscular dystrophy malignant ependymoma schizophrenia bipolar disorder large cell medulloblastoma medulloblastoma

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.