7TES

Cryo-EM structure of GluN1b-2B NMDAR in complex with Fab5 in Non-active1 conformation

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Type 2 solute binding protein-like	8034027	3000083	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Type 2 solute binding protein-like	8034027	3000083	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF00060	e7tesA4	A: alpha complex topology	X: Voltage-gated ion channels (From Topology)	H: Voltage-gated ion channels (From Topology)	T: Voltage-gated ion channels	F: PF00060	ECOD (1.6)
A	PF01094	e7tesA1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: PF01094	ECOD (1.6)
A	F_UNCLASSIFIED	e7tesA2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: F_UNCLASSIFIED	ECOD (1.6)
A	PF10613	e7tesA5	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF10613	ECOD (1.6)
C	PF00060	e7tesC5	A: alpha complex topology	X: Voltage-gated ion channels (From Topology)	H: Voltage-gated ion channels (From Topology)	T: Voltage-gated ion channels	F: PF00060	ECOD (1.6)
C	PF01094	e7tesC3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: PF01094	ECOD (1.6)
C	F_UNCLASSIFIED	e7tesC4	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: F_UNCLASSIFIED	ECOD (1.6)
C	PF10613	e7tesC1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF10613	ECOD (1.6)
B	PF00060	e7tesB4	A: alpha complex topology	X: Voltage-gated ion channels (From Topology)	H: Voltage-gated ion channels (From Topology)	T: Voltage-gated ion channels	F: PF00060	ECOD (1.6)
B	F_UNCLASSIFIED	e7tesB5	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: F_UNCLASSIFIED	ECOD (1.6)
B	PF01094	e7tesB3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: PF01094	ECOD (1.6)
B	F_UNCLASSIFIED	e7tesB2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: F_UNCLASSIFIED	ECOD (1.6)
B	PF10613	e7tesB1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF10613	ECOD (1.6)
D	PF00060	e7tesD3	A: alpha complex topology	X: Voltage-gated ion channels (From Topology)	H: Voltage-gated ion channels (From Topology)	T: Voltage-gated ion channels	F: PF00060	ECOD (1.6)
D	F_UNCLASSIFIED	e7tesD5	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: F_UNCLASSIFIED	ECOD (1.6)
D	PF01094	e7tesD1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: PF01094	ECOD (1.6)
D	F_UNCLASSIFIED	e7tesD4	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: F_UNCLASSIFIED	ECOD (1.6)
D	PF10613	e7tesD2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF10613	ECOD (1.6)
E [auth H]	PF07654	e7tesH2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
E [auth H]	PF07686	e7tesH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
G [auth M]	PF07654	e7tesM1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
G [auth M]	PF07686	e7tesM2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
F [auth L]	PF07654	e7tesL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
F [auth L]	PF07686	e7tesL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
H [auth N]	PF07654	e7tesN1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
H [auth N]	PF07686	e7tesN2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
E [auth H], G [auth M]	Heavy Chain	IGHV5	-	glutamate receptor ionotropic, nmda 2b \| glutamate receptor ionotropic, nmda 1	SAbDab (2024-04-26)
F [auth L], H [auth N]	Light Chain	IGKV3	Kappa	glutamate receptor ionotropic, nmda 2b \| glutamate receptor ionotropic, nmda 1	SAbDab (2024-04-26)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF00060	Ligand-gated ion channel (Lig_chan)	Ligand-gated ion channel	-	Family
A, C	PF01094	Receptor family ligand binding region (ANF_receptor)	Receptor family ligand binding region	-	Family
A, C	PF00497	Bacterial extracellular solute-binding proteins, family 3 (SBP_bac_3)	Bacterial extracellular solute-binding proteins, family 3	This is a sensor domain found in solute-binding protein family 3 members from Gram-positive bacteria, Gram-negative bacteria and archaea. It can also be found in the N-terminal of the membrane-bound lytic murein transglycosylase F (MltF) protein. Th ...	This is a sensor domain found in solute-binding protein family 3 members from Gram-positive bacteria, Gram-negative bacteria and archaea. It can also be found in the N-terminal of the membrane-bound lytic murein transglycosylase F (MltF) protein. This domain recognises Nicotinate, quidalnate, pyridine-2,5-dicarboxylate and salicylate [1].	Domain
A, C	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
B, D	PF10565	N-methyl D-aspartate receptor 2B3 C-terminus (NMDAR2_C)	N-methyl D-aspartate receptor 2B3 C-terminus	-	Family
B, D	PF00060	Ligand-gated ion channel (Lig_chan)	Ligand-gated ion channel	-	Family
B, D	PF01094	Receptor family ligand binding region (ANF_receptor)	Receptor family ligand binding region	-	Family
B, D	PF00497	Bacterial extracellular solute-binding proteins, family 3 (SBP_bac_3)	Bacterial extracellular solute-binding proteins, family 3	This is a sensor domain found in solute-binding protein family 3 members from Gram-positive bacteria, Gram-negative bacteria and archaea. It can also be found in the N-terminal of the membrane-bound lytic murein transglycosylase F (MltF) protein. Th ...	This is a sensor domain found in solute-binding protein family 3 members from Gram-positive bacteria, Gram-negative bacteria and archaea. It can also be found in the N-terminal of the membrane-bound lytic murein transglycosylase F (MltF) protein. This domain recognises Nicotinate, quidalnate, pyridine-2,5-dicarboxylate and salicylate [1].	Domain
B, D	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, C	Glutamate receptor ionotropic, NMDA 1	ligand-gated channel activity ligand-gated monoatomic ion channel activity passive transmembrane transporter activity gated channel activity monoatomic ion channel activity channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity amide binding amyloid-beta binding binding peptide binding cation binding ligand-gated channel activity ligand-gated monoatomic ion channel activity passive transmembrane transporter activity gated channel activity monoatomic ion channel activity channel activity monoatomic ion transmembrane transporter activity transporter activity 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 protein-containing complex binding protein binding calmodulin binding calcium ion binding metal ion binding signaling receptor binding transmitter-gated monoatomic ion channel activity molecular transducer activity voltage-gated channel activity voltage-gated monoatomic ion channel activity glutamate-gated receptor activity neurotransmitter receptor activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity transmembrane signaling receptor activity NMDA glutamate receptor activity glutamate receptor activity signaling receptor activity carboxylic acid transmembrane transporter activity extracellular ligand-gated monoatomic ion channel activity amino acid transmembrane transporter activity transmitter-gated channel activity organic acid transmembrane transporter activity organic anion transmembrane transporter activity monoatomic cation transmembrane transporter activity monoatomic cation channel activity phosphatase binding enzyme binding calcium channel activity calcium ion transmembrane transporter activity metal ion transmembrane transporter activity glutamate receptor binding ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential ligand-gated calcium channel activity ligand-gated monoatomic cation channel activity glutamate-gated calcium ion channel activity voltage-gated monoatomic cation channel 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 glutamate 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 or memory cognition memory reproductive process male mating behavior multicellular organismal reproductive process reproductive behavior mating behavior protein localization protein localization to postsynaptic membrane protein localization to cell periphery cellular localization protein localization to synapse localization within membrane protein localization to membrane localization cellular macromolecule localization macromolecule localization protein localization to postsynapse protein localization to cell junction startle response neuromuscular process response to external stimulus suckling behavior feeding behavior inorganic ion homeostasis chemical homeostasis homeostatic process monoatomic ion homeostasis calcium ion homeostasis monoatomic cation homeostasis response to morphine response to isoquinoline alkaloid response to organic substance response to organonitrogen compound response to chemical response to nitrogen compound response to organic cyclic compound response to alkaloid regulation of localization regulation of calcium ion transport positive regulation of cation transmembrane transport positive regulation of calcium ion transport regulation of calcium ion transport into cytosol transport monoatomic ion transmembrane transport regulation of monoatomic ion transmembrane transport calcium ion transport metal ion transport monoatomic cation transmembrane transport regulation of calcium ion transmembrane transport positive regulation of monoatomic ion transport positive regulation of calcium ion transmembrane transport positive regulation of transmembrane transport monoatomic ion transport positive regulation of monoatomic ion transmembrane transport monoatomic cation transport regulation of metal ion transport calcium ion transmembrane import into cytosol regulation of transport regulation of monoatomic ion transport positive regulation of cytosolic calcium ion concentration inorganic ion transmembrane transport establishment of localization inorganic cation transmembrane transport transmembrane transport positive regulation of calcium ion transport into cytosol regulation of transmembrane transport positive regulation of transport regulation of cellular localization regulation of monoatomic cation transmembrane transport calcium ion transmembrane transport calcium ion transport into cytosol regulation of cellular component organization cellular component organization cellular component biogenesis multicellular organism development cellular component assembly cell junction assembly anatomical structure development regulation of synapse structure or activity regulation of synapse assembly synapse organization cellular component organization or biogenesis system development developmental process nervous system development regulation of cellular component biogenesis regulation of cell junction assembly regulation of synapse organization cell junction organization synapse assembly regulation of respiratory gaseous exchange respiratory gaseous exchange by respiratory system cellular homeostasis neuron cellular homeostasis protein-containing complex organization protein-containing complex assembly regulation of neuron projection development axonogenesis cellular developmental process regulation of developmental process cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis neurogenesis cell projection morphogenesis neuron differentiation neuron projection morphogenesis regulation of axonogenesis cell differentiation regulation of anatomical structure morphogenesis plasma membrane bounded cell projection organization regulation of cell projection organization axon development cell morphogenesis involved in neuron differentiation generation of neurons anatomical structure morphogenesis neuron development regulation of plasma membrane bounded cell projection organization synaptic transmission, glutamatergic regulation of synaptic transmission, glutamatergic positive regulation of synaptic transmission positive regulation of synaptic transmission, glutamatergic dendritic spine maintenance positive regulation of cellular component organization cellular component maintenance regulation of dendritic spine maintenance positive regulation of dendritic spine maintenance positive regulation of cell projection organization dendritic spine organization postsynapse organization regulation of postsynapse organization neuron projection organization cellular response to inorganic substance cellular response to metal ion cellular response to manganese ion response to inorganic substance cellular response to chemical stimulus response to metal ion response to manganese ion response to antibiotic response to fungicide response to toxic substance pons development head development hindbrain maturation central nervous system maturation pons maturation animal organ development brain development developmental maturation central nervous system development anatomical structure maturation metencephalon development hindbrain development biological process involved in intraspecies interaction between organisms social behavior ligand-gated ion channel signaling pathway ionotropic glutamate receptor signaling pathway glutamate receptor signaling pathway reactive oxygen species biosynthetic process regulation of biosynthetic process cellular metabolic process positive regulation of reactive oxygen species biosynthetic process reactive oxygen species metabolic process regulation of cellular metabolic process positive regulation of cellular metabolic process regulation of reactive oxygen species biosynthetic process positive regulation of reactive oxygen species metabolic process positive regulation of metabolic process biosynthetic process positive regulation of biosynthetic process metabolic process regulation of metabolic process regulation of reactive oxygen species metabolic process dendrite development regulation of dendrite morphogenesis dendrite morphogenesis regulation of dendrite development learning associative learning response to amine response to amphetamine sensory perception sensory perception of pain conditioned taste aversion response to calcium ion olfactory behavior chemosensory behavior olfactory learning positive regulation of locomotion regulation of cell motility glial cell migration regulation of Schwann cell migration regulation of glial cell migration positive regulation of cell migration positive regulation of Schwann cell migration gliogenesis positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion Schwann cell migration positive regulation of glial cell migration regulation of locomotion positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death positive regulation of apoptotic process apoptotic process programmed cell death intracellular calcium ion homeostasis intracellular monoatomic cation homeostasis intracellular chemical homeostasis intracellular monoatomic ion homeostasis regulation of response to external stimulus negative regulation of response to stimulus negative regulation of biological process prepulse inhibition negative regulation of response to external stimulus regulation of neuronal synaptic plasticity regulation of synaptic plasticity regulation of long-term neuronal synaptic plasticity forebrain development pallium development cerebral cortex development telencephalon development positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II organic substance biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase II positive regulation of nucleobase-containing compound metabolic process primary metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process organic cyclic compound metabolic process regulation of gene expression organic cyclic compound biosynthetic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription positive regulation of DNA-templated transcription cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process organic substance metabolic process regulation of RNA biosynthetic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process protein heterotetramerization protein complex oligomerization protein tetramerization protein heterooligomerization adult locomotory behavior adult behavior locomotory behavior neuron apoptotic process regulation of neuron apoptotic process response to acid chemical response to glycine response to oxygen-containing compound response to amino acid response to light stimulus visual learning visual behavior response to radiation response to abiotic stimulus negative regulation of neuron apoptotic process negative regulation of programmed cell death negative regulation of apoptotic process negative regulation of cellular process cellular response to xenobiotic stimulus propylene metabolic process hydrocarbon metabolic process xenobiotic metabolic process response to xenobiotic stimulus cellular alkene metabolic process olefinic compound metabolic process olefin metabolic process response to alcohol response to ethanol long-term memory rhythmic process	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 parallel fiber to Purkinje cell synapse excitatory synapse neuron spine neuron projection dendritic spine plasma membrane bounded cell projection somatodendritic compartment cell projection dendrite dendritic tree membrane-bounded organelle intracellular anatomical structure transport vesicle intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle presynapse cytoplasmic vesicle synaptic vesicle secretory vesicle cytoplasm vesicle exocytic vesicle 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 organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane presynaptic active zone membrane presynaptic membrane presynaptic active zone hippocampal mossy fiber to CA3 synapse cell leading edge leading edge membrane neuron projection membrane dendrite membrane cell projection membrane dendritic branch synaptic cleft extracellular region glutamatergic synapse cell body neuronal cell body transport vesicle membrane bounding membrane of organelle vesicle membrane synaptic vesicle membrane exocytic vesicle membrane cytoplasmic vesicle membrane axon axon terminus distal axon terminal bouton neuron projection terminus
B, D	Glutamate receptor ionotropic, NMDA 2B	protein binding binding interleukin-1 receptor binding signaling receptor binding cytokine receptor binding growth factor receptor binding cation binding organic acid binding ion binding anion binding glycine binding amino acid binding carboxylic acid binding small molecule binding protein binding binding interleukin-1 receptor binding signaling receptor binding cytokine receptor binding growth factor receptor binding cation binding organic acid binding ion binding anion binding glycine binding amino acid binding carboxylic acid binding small molecule binding gated channel activity monoatomic ion channel activity excitatory extracellular ligand-gated monoatomic ion channel activity ligand-gated channel activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity passive transmembrane transporter activity extracellularly glutamate-gated ion channel activity channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity protein-containing complex binding D2 dopamine receptor binding G protein-coupled receptor binding dopamine receptor binding cell adhesion molecule binding scaffold protein binding heterocyclic compound binding beta-catenin binding neurotransmitter receptor activity postsynaptic neurotransmitter receptor activity molecular transducer activity neurotransmitter receptor activity involved in regulation of postsynaptic membrane potential signaling receptor activity transmitter-gated monoatomic ion channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity glutamate-gated receptor activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity transmembrane signaling receptor activity NMDA glutamate receptor activity glutamate receptor activity carboxylic acid transmembrane transporter activity amino acid transmembrane transporter activity transmitter-gated channel activity organic acid transmembrane transporter activity organic anion transmembrane transporter activity monoatomic cation transmembrane transporter activity monoatomic cation channel activity calcium channel activity calcium ion transmembrane transporter activity metal ion transmembrane transporter activity ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential ligand-gated calcium channel activity ligand-gated monoatomic cation channel activity glutamate-gated calcium ion channel activity ionotropic glutamate receptor binding glutamate receptor binding neurotransmitter receptor activity involved in regulation of postsynaptic cytosolic calcium ion concentration transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential transition metal ion binding zinc ion binding metal ion binding glutamate 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 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 organic substance 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 response to organic substance response to chemical response to methylmercury biological process involved in interspecies interaction between organisms response to other organism response to external stimulus response to external biotic stimulus response to biotic stimulus behavior learning or memory cognition memory response to toxic substance response to stress multicellular organismal response to stress response to pain behavioral response to pain startle response neuromuscular process suckling behavior feeding behavior response to growth hormone response to hormone response to endogenous stimulus response to organonitrogen compound response to peptide hormone response to oxygen-containing compound response to nitrogen compound protein localization localization cellular localization receptor clustering cellular macromolecule localization macromolecule localization localization within membrane protein localization to membrane cellular response to chemical stimulus cellular response to organic cyclic compound cellular response to organic substance response to organic cyclic compound positive regulation of synaptic transmission response to metal ion response to manganese ion response to inorganic substance detection of external stimulus detection of stimulus involved in sensory perception of pain detection of mechanical stimulus involved in sensory perception of pain response to mechanical stimulus sensory perception of pain detection of mechanical stimulus involved in sensory perception sensory perception of mechanical stimulus detection of abiotic stimulus detection of stimulus sensory perception detection of mechanical stimulus response to abiotic stimulus detection of stimulus involved in sensory perception synaptic transmission, glutamatergic regulation of synaptic transmission, glutamatergic positive regulation of synaptic transmission, glutamatergic inorganic ion homeostasis intracellular calcium ion homeostasis homeostatic process calcium ion homeostasis regulation of postsynaptic cytosolic calcium ion concentration regulation of cytosolic calcium ion concentration cellular homeostasis chemical homeostasis intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis transport monoatomic ion transport monoatomic cation transport establishment of localization response to cytokine cellular response to inorganic substance cellular response to metal ion cellular response to manganese ion cellular response to endogenous stimulus cellular response to growth factor stimulus response to growth factor response to antibiotic response to fungicide ligand-gated ion channel signaling pathway ionotropic glutamate receptor signaling pathway glutamate receptor signaling pathway learning associative learning response to amine response to amphetamine calcium ion transport metal ion transport regulation of localization nitrogen compound transport regulation of glutamate secretion positive regulation of secretion by cell positive regulation of amine transport secretion by cell regulation of secretion by cell positive regulation of secretion regulation of amino acid transport glutamate secretion organic anion transport carboxylic acid transport secretion regulation of transport organic substance transport positive regulation of glutamate secretion export from cell regulation of secretion positive regulation of organic acid transport organic acid transport amino acid transport amine transport acidic amino acid transport positive regulation of transport positive regulation of amino acid transport regulation of organic acid transport dicarboxylic acid transport regulation of amine transport response to carbohydrate response to ketone response to lipid response to alcohol cellular response to forskolin cellular response to oxygen-containing compound cellular response to alcohol response to forskolin cellular response to lipid cellular response to ketone cellular response to nitrogen compound cellular response to dsRNA response to dsRNA response to calcium ion regulation of MAPK cascade intracellular signal transduction regulation of intracellular signal transduction intracellular signaling cassette MAPK cascade fear response developmental process multicellular organism development embryo development ending in birth or egg hatching chordate embryonic development anatomical structure development embryo development in utero embryonic development response to electrical stimulus regulation of neuronal synaptic plasticity regulation of synaptic plasticity regulation of long-term neuronal synaptic plasticity regulation of protein kinase A signaling protein kinase A signaling head development forebrain development animal organ development brain development nervous system development pallium development cerebral cortex development central nervous system development telencephalon development system development cellular response to acid chemical cellular response to amino acid stimulus response to acid chemical response to amino acid response to decreased oxygen levels response to hypoxia response to oxygen levels monoatomic cation transmembrane transport transmembrane transport monoatomic ion transmembrane transport NMDA selective glutamate receptor signaling pathway 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 response to curcumin cellular response to ether response to ether cellular response to curcumin cellular response to nutrient levels response to nutrient levels cellular response to stress response to starvation cellular response to starvation cellular response to magnesium starvation protein-containing complex organization protein heterotetramerization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein heterooligomerization hippocampus development limbic system development action potential nonassociative learning sensitization regulation of monoatomic ion transport regulation of monoatomic ion transmembrane transport regulation of transmembrane transport regulation of monoatomic cation transmembrane transport response to ethanol long-term memory sensory organ development rhythmic process calcium ion transmembrane import into cytosol inorganic ion transmembrane transport inorganic cation transmembrane transport calcium ion transmembrane transport behavioral defense response behavioral fear response defense response cellular response to mineralocorticoid stimulus response to corticosterone response to mineralocorticoid response to steroid hormone cellular response to steroid hormone stimulus cellular response to hormone stimulus response to glucocorticoid cellular response to glucocorticoid stimulus cellular response to corticosterone stimulus cellular response to corticosteroid stimulus response to corticosteroid long-term synaptic potentiation cellular developmental process cell development generation of neurons neurogenesis neuron differentiation cell differentiation neuron development response to cocaine response to alkaloid response to magnesium ion	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 parallel fiber to Purkinje cell synapse excitatory synapse neuron spine neuron projection dendritic spine plasma membrane bounded cell projection somatodendritic compartment cell projection dendrite dendritic tree membrane-bounded organelle intracellular anatomical structure transport vesicle intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle presynapse cytoplasmic vesicle synaptic vesicle secretory vesicle cytoplasm vesicle exocytic vesicle 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 lytic vacuole vacuole lysosome organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane presynaptic active zone membrane presynaptic membrane presynaptic active zone hippocampal mossy fiber to CA3 synapse endosome late endosome apical dendrite dendritic branch Z disc sarcomere I band intracellular non-membrane-bounded organelle contractile muscle fiber supramolecular fiber myofibril supramolecular polymer supramolecular complex non-membrane-bounded organelle synaptic cleft extracellular region glutamatergic synapse cytoskeleton cell body neuronal cell body axon axon terminus distal axon terminal bouton neuron projection terminus
E [auth H], G [auth M]	Fab5 heavy chain	-	-	-
F [auth L], H [auth N]	Fab5 light chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

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

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C, D	OPM	Transmembrane	Alpha-helical polytopic	Ion channel (VIC) superfamily	Glutamate-gated Ion Channel (GIC) family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, C, D	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C, D	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Channels: Other Ion Channels	GluN1b-GluN2B NMDA receptor heterodimer, complexed to Fab2 class1

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.

Prepare Data

Validate Data

Deposit Data

Help and Resources

7TES

Cryo-EM structure of GluN1b-2B NMDAR in complex with Fab5 in Non-active1 conformation

External Resource: Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Domain Annotation: ECOD Classification ECOD Database Homepage

SAbDab Antibody Annotation SAbDab Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage

Membrane Protein Annotation: OPM OPM Database Homepage

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Membrane Protein Annotation: mpstruc mpstruc Database Homepage