5EWJ

CRYSTAL STRUCTURE OF AMINO TERMINAL DOMAINS OF THE NMDA RECEPTOR SUBUNIT GLUN1 AND GLUN2B IN COMPLEX WITH IFENPRODIL

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	ANF_receptor_3rd	e5ewjA2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: ANF_receptor_3rd	ECOD (1.6)
A	ANF_receptor_2nd	e5ewjA1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: ANF_receptor_2nd	ECOD (1.6)
C	ANF_receptor_3rd	e5ewjC2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: ANF_receptor_3rd	ECOD (1.6)
C	ANF_receptor_2nd	e5ewjC1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: ANF_receptor_2nd	ECOD (1.6)
D	ANF_receptor_3rd	e5ewjD1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: ANF_receptor_3rd	ECOD (1.6)
D	ANF_receptor_2nd	e5ewjD2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: ANF_receptor_2nd	ECOD (1.6)
B	ANF_receptor_3rd	e5ewjB1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: ANF_receptor_3rd	ECOD (1.6)
B	ANF_receptor_2nd	e5ewjB2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: ANF_receptor_2nd	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)
C	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.3.0)
D	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.3.0)
B	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, C	PF01094	Receptor family ligand binding region (ANF_receptor)	Receptor family ligand binding region	-	Family
B, D	PF01094	Receptor family ligand binding region (ANF_receptor)	Receptor family ligand binding region	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	NMDA glutamate receptor subunit	transmitter-gated monoatomic ion channel activity molecular transducer activity monoatomic ion channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity glutamate-gated receptor activity neurotransmitter receptor activity ligand-gated channel activity passive transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity transmembrane signaling receptor activity transporter activity NMDA glutamate receptor activity transmitter-gated monoatomic ion channel activity molecular transducer activity monoatomic ion channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity glutamate-gated receptor activity neurotransmitter receptor activity ligand-gated channel activity passive transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity transmembrane signaling receptor activity transporter activity NMDA glutamate receptor activity glutamate receptor activity gated channel activity signaling receptor activity carboxylic acid transmembrane transporter activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity amino acid transmembrane transporter activity channel activity monoatomic ion transmembrane transporter activity transmitter-gated channel activity organic acid transmembrane transporter activity transmembrane transporter activity organic anion transmembrane transporter activity cation binding ion binding binding metal ion binding small molecule binding	response to stimulus response to metal ion response to chemical response to zinc ion biological regulation regulation of biological quality regulation of membrane potential trans-synaptic signaling synaptic signaling regulation of biological process signaling anterograde trans-synaptic signaling cell-cell signaling cellular process response to stimulus response to metal ion response to chemical response to zinc ion biological regulation regulation of biological quality regulation of membrane potential trans-synaptic signaling synaptic signaling regulation of biological process signaling anterograde trans-synaptic signaling cell-cell signaling cellular process chemical synaptic transmission cell communication	cell periphery postsynapse postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region cellular anatomical entity synaptic membrane protein-containing complex plasma membrane protein complex membrane protein complex transporter complex cell periphery postsynapse postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region cellular anatomical entity synaptic membrane protein-containing complex plasma membrane protein complex membrane protein complex transporter complex NMDA selective glutamate receptor complex receptor complex ionotropic glutamate receptor complex neurotransmitter receptor complex transmembrane transporter complex plasma membrane signaling receptor complex monoatomic ion channel complex cell projection neuron projection plasma membrane bounded cell projection
B, D	Glutamate receptor ionotropic, NMDA 2B	transmitter-gated monoatomic ion channel activity molecular transducer activity monoatomic ion channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity glutamate-gated receptor activity neurotransmitter receptor activity ligand-gated channel activity passive transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity transmembrane signaling receptor activity transporter activity NMDA glutamate receptor activity transmitter-gated monoatomic ion channel activity molecular transducer activity monoatomic ion channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity glutamate-gated receptor activity neurotransmitter receptor activity ligand-gated channel activity passive transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity transmembrane signaling receptor activity transporter activity NMDA glutamate receptor activity glutamate receptor activity gated channel activity signaling receptor activity carboxylic acid transmembrane transporter activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity amino acid transmembrane transporter activity channel activity monoatomic ion transmembrane transporter activity transmitter-gated channel activity organic acid transmembrane transporter activity transmembrane transporter activity organic anion transmembrane transporter activity amide binding amyloid-beta binding binding peptide binding cation binding organic acid binding ion binding anion binding glycine binding amino acid binding carboxylic acid binding small molecule binding ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential monoatomic cation transmembrane transporter activity ligand-gated calcium channel activity ligand-gated monoatomic cation channel activity calcium channel activity glutamate-gated calcium ion channel activity monoatomic cation channel activity calcium ion transmembrane transporter activity metal ion transmembrane transporter activity 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 transition metal ion binding zinc ion binding metal ion binding glutamate binding	developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development cellular response to stimulus positive regulation of cell communication regulation of postsynaptic membrane potential system process developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development cellular response to stimulus positive regulation of cell communication 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 regulation of catalytic activity positive regulation of protein metabolic process positive regulation of peptidase activity regulation of primary metabolic process positive regulation of molecular function positive regulation of metabolic process regulation of proteolysis proteolysis regulation of endopeptidase activity positive regulation of macromolecule metabolic process protein metabolic process regulation of cysteine-type endopeptidase activity organonitrogen compound metabolic process regulation of protein metabolic process regulation of peptidase activity positive regulation of catalytic activity primary metabolic process regulation of macromolecule metabolic process regulation of molecular function positive regulation of hydrolase activity positive regulation of cysteine-type endopeptidase activity regulation of hydrolase activity positive regulation of endopeptidase activity positive regulation of proteolysis metabolic process macromolecule metabolic process regulation of metabolic process glutamate receptor signaling pathway regulation of neuronal synaptic plasticity regulation of synaptic plasticity monoatomic cation transmembrane transport transmembrane transport localization transport monoatomic ion transmembrane transport monoatomic ion transport monoatomic cation transport establishment of localization regulation of cellular component organization dendritic spine maintenance cell projection organization cellular component maintenance negative regulation of biological process regulation of dendritic spine maintenance cellular component organization negative regulation of cellular process regulation of synapse structure or activity cellular component organization or biogenesis synapse organization negative regulation of cell projection organization negative regulation of dendritic spine maintenance plasma membrane bounded cell projection organization dendritic spine organization postsynapse organization negative regulation of cellular component organization regulation of cell projection organization regulation of postsynapse organization regulation of synapse organization cell junction organization neuron projection organization regulation of plasma membrane bounded cell projection organization protein-containing complex organization protein heterotetramerization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein heterooligomerization synaptic transmission, glutamatergic regulation of synaptic transmission, glutamatergic positive regulation of synaptic transmission positive regulation of synaptic transmission, glutamatergic regulation of localization regulation of transport regulation of monoatomic ion transport regulation of monoatomic ion transmembrane transport regulation of transmembrane transport regulation of monoatomic cation transmembrane transport response to alcohol response to chemical response to oxygen-containing compound response to ethanol calcium ion transmembrane import into cytosol inorganic ion transmembrane transport calcium ion transport metal ion transport inorganic cation transmembrane transport calcium ion transmembrane transport ligand-gated ion channel signaling pathway ionotropic glutamate receptor signaling pathway behavior learning or memory cognition excitatory chemical synaptic transmission long-term synaptic potentiation	postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane cellular anatomical entity postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse neuron to neuron synapse organelle cell junction postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane cellular anatomical entity postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse neuron to neuron synapse organelle cell junction postsynaptic membrane asymmetric synapse plasma membrane region intracellular anatomical structure cytoplasm cell projection neuron projection plasma membrane bounded cell projection intracellular organelle cytoskeleton intracellular non-membrane-bounded organelle non-membrane-bounded organelle protein-containing complex plasma membrane protein complex membrane protein complex transporter complex NMDA selective glutamate receptor complex receptor complex ionotropic glutamate receptor complex neurotransmitter receptor complex transmembrane transporter complex plasma membrane signaling receptor complex monoatomic ion channel complex cell surface membrane-bounded organelle lytic vacuole vacuole intracellular membrane-bounded organelle lysosome organelle subcompartment endomembrane system endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane endosome intracellular vesicle cytoplasmic vesicle late endosome vesicle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR028082	Periplasmic binding protein-like I	Homologous Superfamily
A, C	IPR049873	Glutamate [NMDA] receptor subunit 1-like, N-terminal LIVBP-like domain	Domain
A, C	IPR001638	Solute-binding protein family 3/N-terminal domain of MltF	Domain
A, C	IPR019594	Ionotropic glutamate receptor, L-glutamate and glycine-binding domain	Domain
A, C	IPR015683	Ionotropic glutamate receptor	Family
A, C	IPR049872	Glutamate [NMDA] receptor subunit 1-like, ligand-binding domain	Domain
A, C	IPR001508	Ionotropic glutamate receptor, metazoa	Family
A, C	IPR001320	Ionotropic glutamate receptor, C-terminal	Domain
A, C	IPR001828	Receptor, ligand binding region	Domain
B, D	IPR018884	Glutamate [NMDA] receptor, epsilon subunit, C-terminal	Domain
B, D	IPR001638	Solute-binding protein family 3/N-terminal domain of MltF	Domain
B, D	IPR028082	Periplasmic binding protein-like I	Homologous Superfamily
B, D	IPR001508	Ionotropic glutamate receptor, metazoa	Family
B, D	IPR001828	Receptor, ligand binding region	Domain
B, D	IPR001320	Ionotropic glutamate receptor, C-terminal	Domain
B, D	IPR019594	Ionotropic glutamate receptor, L-glutamate and glycine-binding domain	Domain
B, D	IPR015683	Ionotropic glutamate receptor	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B, D	Pharos: Q13224	epilepsy intellectual disability, autosomal dominant 6 developmental and epileptic encephalopathy, 27 West syndrome schizophrenia intellectual disability Hyperalgesia autism spectrum disorder psoriasis Sjogren syndrome mood disorder developmental and epileptic encephalopathy oligodendroglioma primitive neuroectodermal tumor large cell medulloblastoma epilepsy intellectual disability, autosomal dominant 6 developmental and epileptic encephalopathy, 27 West syndrome schizophrenia intellectual disability Hyperalgesia autism spectrum disorder psoriasis Sjogren syndrome mood disorder developmental and epileptic encephalopathy oligodendroglioma primitive neuroectodermal tumor large cell medulloblastoma malignant ependymoma medulloblastoma astrocytic tumor bipolar disorder neurodegenerative disease osteosarcoma pilocytic astrocytoma glioblastoma hypotensive disorder toxic encephalopathy Lennox-Gastaut syndrome malignant glioma atypical teratoid rhabdoid tumor depressive disorder Parkinson disease postencephalitic Parkinson disease

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.