6MMT | pdb_00006mmt

Triheteromeric NMDA receptor GluN1/GluN2A/GluN2A* in the '1-Knuckle' conformation, in complex with glycine and glutamate, in the presence of 1 micromolar zinc chloride, and at pH 7.4

External Resource: Annotation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Type 2 solute binding protein-like	8036603	3000083	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Type 2 solute binding protein-like	8036603	3000083	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Type 2 solute binding protein-like	8036603	3000083	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Type 2 solute binding protein-like	8036603	3000083	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Type 2 solute binding protein-like	8034027	3000083	SCOP2B (2022-06-29)
A	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)
D	Lig_chan	e6mmtD4	A: alpha complex topology	X: Voltage-gated ion channels (From Topology)	H: Voltage-gated ion channels (From Topology)	T: Voltage-gated ion channels	F: Lig_chan	ECOD (1.6)
D	ANF_receptor_3rd	e6mmtD1	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	e6mmtD5	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	Lig_chan_1	e6mmtD2	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: Lig_chan_1	ECOD (1.6)
D	Lig_chan_5	e6mmtD3	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: Lig_chan_5	ECOD (1.6)
B	Lig_chan	e6mmtB3	A: alpha complex topology	X: Voltage-gated ion channels (From Topology)	H: Voltage-gated ion channels (From Topology)	T: Voltage-gated ion channels	F: Lig_chan	ECOD (1.6)
B	ANF_receptor_3rd	e6mmtB1	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	e6mmtB4	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	Lig_chan_1	e6mmtB2	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: Lig_chan_1	ECOD (1.6)
B	Lig_chan_5	e6mmtB5	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: Lig_chan_5	ECOD (1.6)
C	Lig_chan	e6mmtC3	A: alpha complex topology	X: Voltage-gated ion channels (From Topology)	H: Voltage-gated ion channels (From Topology)	T: Voltage-gated ion channels	F: Lig_chan	ECOD (1.6)
C	ANF_receptor_3rd	e6mmtC4	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	e6mmtC5	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	SBP_bac_3_1st	e6mmtC1	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: SBP_bac_3_1st	ECOD (1.6)
C	Lig_chan_1	e6mmtC2	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: Lig_chan_1	ECOD (1.6)
A	Lig_chan	e6mmtA1	A: alpha complex topology	X: Voltage-gated ion channels (From Topology)	H: Voltage-gated ion channels (From Topology)	T: Voltage-gated ion channels	F: Lig_chan	ECOD (1.6)
A	ANF_receptor_3rd	e6mmtA5	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	e6mmtA2	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)
A	SBP_bac_3_1st	e6mmtA3	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: SBP_bac_3_1st	ECOD (1.6)
A	Lig_chan_1	e6mmtA4	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: Lig_chan_1	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
D	PF00060	Ligand-gated ion channel (Lig_chan)	Ligand-gated ion channel	-	Family
D	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
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
B	PF00060	Ligand-gated ion channel (Lig_chan)	Ligand-gated ion channel	-	Family
B	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
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
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	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
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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D	Glutamate receptor ionotropic, NMDA 2A	protein-containing complex binding binding protein tyrosine kinase binding protein binding kinase binding enzyme binding protein kinase binding signaling receptor binding cell adhesion molecule binding scaffold protein binding calcium-dependent protein binding transmitter-gated monoatomic ion channel activity molecular transducer activity monoatomic ion channel activity protein-containing complex binding binding protein tyrosine kinase binding protein binding kinase binding enzyme binding protein kinase binding signaling receptor binding cell adhesion molecule binding scaffold protein binding calcium-dependent protein binding 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 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 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 ATPase binding 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 cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding organic acid binding anion binding amino acid binding carboxylic acid binding glutamate binding	response to stimulus response to chemical response to xenobiotic stimulus cellular response to stimulus multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process signaling modulation of chemical synaptic transmission regulation of system process regulation of signal transduction chemical synaptic transmission, postsynaptic cell communication response to stimulus response to chemical response to xenobiotic stimulus cellular response to stimulus multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process signaling modulation of chemical synaptic transmission regulation of system process regulation of signal transduction chemical synaptic transmission, postsynaptic cell communication synaptic signaling modulation of excitatory postsynaptic potential regulation of multicellular organismal process signal transduction regulation of biological quality 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 cell communication positive regulation of signal transduction positive regulation of excitatory postsynaptic potential positive regulation of biological process positive regulation of response to stimulus positive regulation of cellular process positive regulation of signaling response to methylmercury catabolic process metabolic process primary metabolic process protein catabolic process protein metabolic process macromolecule metabolic process macromolecule catabolic process 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 glutamate receptor signaling pathway behavior learning or memory cognition memory amine metabolic process catecholamine metabolic process phenol-containing compound metabolic process dopamine metabolic process catechol-containing compound metabolic process biogenic amine metabolic process response to environmental enrichment transport monoatomic ion transmembrane transport establishment of localization calcium ion transport metal ion transport monoatomic cation transmembrane transport transmembrane transport localization monoatomic ion transport monoatomic cation transport calcium ion transmembrane transport protein localization to postsynaptic membrane protein localization to cell periphery cellular localization protein localization to synapse localization within membrane protein localization to membrane macromolecule localization protein localization to postsynapse intracellular protein localization protein localization to cell junction startle response neuromuscular process establishment of protein localization nitrogen compound transport neurotransmitter receptor transport protein localization to endosome plasma membrane to endosome transport neurotransmitter receptor transport, plasma membrane to endosome vesicle-mediated transport protein-containing complex localization establishment of protein localization to organelle protein transport protein localization to organelle response to stress response to wounding learning conditioned place preference associative learning response to auditory stimulus auditory behavior response to mechanical stimulus response to abiotic stimulus mechanosensory behavior receptor metabolic process receptor recycling regulation of response to alcohol response to alcohol response to oxygen-containing compound developmental process multicellular organism development spinal cord development central nervous system development anatomical structure development nervous system development system development response to metal ion response to manganese ion neurogenesis cellular developmental process cell differentiation synaptic transmission, glutamatergic regulation of synaptic transmission, glutamatergic positive regulation of synaptic transmission positive regulation of synaptic transmission, glutamatergic regulation of localization regulation of signaling receptor activity regulation of transmembrane transporter activity regulation of NMDA receptor activity regulation of transport regulation of molecular function regulation of transmembrane transport regulation of neurotransmitter receptor activity cellular response to metal ion cellular response to chemical stimulus cellular response to manganese ion sodium ion transmembrane transport sodium ion transport response to lead ion cellular response to endogenous stimulus cellular response to growth factor stimulus response to endogenous stimulus response to growth factor response to antibiotic response to fungicide response to toxic substance response to magnesium ion cellular response to magnesium ion response to zinc ion cellular response to zinc ion small GTPase-mediated signal transduction regulation of small GTPase mediated signal transduction ARF protein signal transduction intracellular signal transduction regulation of intracellular signal transduction regulation of ARF protein signal transduction intracellular signaling cassette directional locomotion locomotion ligand-gated ion channel signaling pathway ionotropic glutamate receptor signaling pathway response to amine response to nitrogen compound response to amphetamine sensory perception sensory perception of pain response to carbohydrate cellular response to nitrogen compound cellular response to dsRNA response to dsRNA positive regulation of inhibitory postsynaptic potential positive regulation of nervous system process modulation of inhibitory postsynaptic potential inhibitory postsynaptic potential positive regulation of multicellular organismal process response to calcium ion 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 response to light stimulus response to radiation multicellular organismal response to stress regulation of neuronal synaptic plasticity regulation of synaptic plasticity regulation of long-term neuronal synaptic plasticity response to lithium ion head development forebrain development animal organ development brain development pallium development cerebral cortex development telencephalon development cellular component organization cell junction organization dendritic spine organization postsynapse organization plasma membrane bounded cell projection organization cell projection organization neuron projection organization synapse organization cellular component organization or biogenesis cellular response to acid chemical cellular response to amino acid stimulus response to acid chemical response to amino acid negative regulation of biological process negative regulation of protein catabolic process regulation of primary metabolic process negative regulation of cellular process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process negative regulation of catabolic process regulation of protein metabolic process negative regulation of metabolic process regulation of macromolecule metabolic process regulation of catabolic process regulation of metabolic process regulation of protein catabolic process response to hydrogen sulfide regulation of protein localization protein targeting positive regulation of establishment of protein localization regulation of protein targeting to membrane establishment of protein localization to membrane regulation of establishment of protein localization protein targeting to membrane regulation of cellular localization regulation of protein targeting positive regulation of protein targeting to membrane hippocampus development limbic system development action potential regulation of monoatomic ion transport regulation of monoatomic ion transmembrane transport regulation of monoatomic cation transmembrane transport visual learning visual behavior serotonin metabolic process indole-containing compound metabolic process response to ethanol response to ammonium ion sleep rhythmic process response to glycine cellular response to glycine cellular response to oxygen-containing compound calcium ion transmembrane import into cytosol response to nicotine long-term synaptic potentiation response to glycoside cell development generation of neurons neuron differentiation neuron development response to cocaine response to alkaloid response to lipid cellular response to lipid	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 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 cytoplasmic vesicle membrane vesicle membrane cell leading edge leading edge membrane neuron projection membrane dendrite membrane cell projection membrane presynaptic membrane glutamatergic synapse postsynaptic density, intracellular component intracellular membraneless organelle postsynaptic specialization, intracellular component membraneless organelle axon axon terminus distal axon terminal bouton neuron projection terminus
B	Glutamate receptor ionotropic, NMDA 2A	protein-containing complex binding binding protein tyrosine kinase binding protein binding kinase binding enzyme binding protein kinase binding signaling receptor binding cell adhesion molecule binding scaffold protein binding calcium-dependent protein binding transmitter-gated monoatomic ion channel activity molecular transducer activity monoatomic ion channel activity protein-containing complex binding binding protein tyrosine kinase binding protein binding kinase binding enzyme binding protein kinase binding signaling receptor binding cell adhesion molecule binding scaffold protein binding calcium-dependent protein binding 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 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 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 ATPase binding 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 cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding organic acid binding anion binding amino acid binding carboxylic acid binding glutamate binding	response to stimulus response to chemical response to xenobiotic stimulus cellular response to stimulus multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process signaling modulation of chemical synaptic transmission regulation of system process regulation of signal transduction chemical synaptic transmission, postsynaptic cell communication response to stimulus response to chemical response to xenobiotic stimulus cellular response to stimulus multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process signaling modulation of chemical synaptic transmission regulation of system process regulation of signal transduction chemical synaptic transmission, postsynaptic cell communication synaptic signaling modulation of excitatory postsynaptic potential regulation of multicellular organismal process signal transduction regulation of biological quality 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 cell communication positive regulation of signal transduction positive regulation of excitatory postsynaptic potential positive regulation of biological process positive regulation of response to stimulus positive regulation of cellular process positive regulation of signaling response to methylmercury catabolic process metabolic process primary metabolic process protein catabolic process protein metabolic process macromolecule metabolic process macromolecule catabolic process 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 glutamate receptor signaling pathway behavior learning or memory cognition memory amine metabolic process catecholamine metabolic process phenol-containing compound metabolic process dopamine metabolic process catechol-containing compound metabolic process biogenic amine metabolic process response to environmental enrichment transport monoatomic ion transmembrane transport establishment of localization calcium ion transport metal ion transport monoatomic cation transmembrane transport transmembrane transport localization monoatomic ion transport monoatomic cation transport calcium ion transmembrane transport protein localization to postsynaptic membrane protein localization to cell periphery cellular localization protein localization to synapse localization within membrane protein localization to membrane macromolecule localization protein localization to postsynapse intracellular protein localization protein localization to cell junction startle response neuromuscular process establishment of protein localization nitrogen compound transport neurotransmitter receptor transport protein localization to endosome plasma membrane to endosome transport neurotransmitter receptor transport, plasma membrane to endosome vesicle-mediated transport protein-containing complex localization establishment of protein localization to organelle protein transport protein localization to organelle response to stress response to wounding learning conditioned place preference associative learning response to auditory stimulus auditory behavior response to mechanical stimulus response to abiotic stimulus mechanosensory behavior receptor metabolic process receptor recycling regulation of response to alcohol response to alcohol response to oxygen-containing compound developmental process multicellular organism development spinal cord development central nervous system development anatomical structure development nervous system development system development response to metal ion response to manganese ion neurogenesis cellular developmental process cell differentiation synaptic transmission, glutamatergic regulation of synaptic transmission, glutamatergic positive regulation of synaptic transmission positive regulation of synaptic transmission, glutamatergic regulation of localization regulation of signaling receptor activity regulation of transmembrane transporter activity regulation of NMDA receptor activity regulation of transport regulation of molecular function regulation of transmembrane transport regulation of neurotransmitter receptor activity cellular response to metal ion cellular response to chemical stimulus cellular response to manganese ion sodium ion transmembrane transport sodium ion transport response to lead ion cellular response to endogenous stimulus cellular response to growth factor stimulus response to endogenous stimulus response to growth factor response to antibiotic response to fungicide response to toxic substance response to magnesium ion cellular response to magnesium ion response to zinc ion cellular response to zinc ion small GTPase-mediated signal transduction regulation of small GTPase mediated signal transduction ARF protein signal transduction intracellular signal transduction regulation of intracellular signal transduction regulation of ARF protein signal transduction intracellular signaling cassette directional locomotion locomotion ligand-gated ion channel signaling pathway ionotropic glutamate receptor signaling pathway response to amine response to nitrogen compound response to amphetamine sensory perception sensory perception of pain response to carbohydrate cellular response to nitrogen compound cellular response to dsRNA response to dsRNA positive regulation of inhibitory postsynaptic potential positive regulation of nervous system process modulation of inhibitory postsynaptic potential inhibitory postsynaptic potential positive regulation of multicellular organismal process response to calcium ion 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 response to light stimulus response to radiation multicellular organismal response to stress regulation of neuronal synaptic plasticity regulation of synaptic plasticity regulation of long-term neuronal synaptic plasticity response to lithium ion head development forebrain development animal organ development brain development pallium development cerebral cortex development telencephalon development cellular component organization cell junction organization dendritic spine organization postsynapse organization plasma membrane bounded cell projection organization cell projection organization neuron projection organization synapse organization cellular component organization or biogenesis cellular response to acid chemical cellular response to amino acid stimulus response to acid chemical response to amino acid negative regulation of biological process negative regulation of protein catabolic process regulation of primary metabolic process negative regulation of cellular process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process negative regulation of catabolic process regulation of protein metabolic process negative regulation of metabolic process regulation of macromolecule metabolic process regulation of catabolic process regulation of metabolic process regulation of protein catabolic process response to hydrogen sulfide regulation of protein localization protein targeting positive regulation of establishment of protein localization regulation of protein targeting to membrane establishment of protein localization to membrane regulation of establishment of protein localization protein targeting to membrane regulation of cellular localization regulation of protein targeting positive regulation of protein targeting to membrane hippocampus development limbic system development action potential regulation of monoatomic ion transport regulation of monoatomic ion transmembrane transport regulation of monoatomic cation transmembrane transport visual learning visual behavior serotonin metabolic process indole-containing compound metabolic process response to ethanol response to ammonium ion sleep rhythmic process response to glycine cellular response to glycine cellular response to oxygen-containing compound calcium ion transmembrane import into cytosol response to nicotine long-term synaptic potentiation response to glycoside cell development generation of neurons neuron differentiation neuron development response to cocaine response to alkaloid response to lipid cellular response to lipid	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 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 cytoplasmic vesicle membrane vesicle membrane cell leading edge leading edge membrane neuron projection membrane dendrite membrane cell projection membrane presynaptic membrane glutamatergic synapse postsynaptic density, intracellular component intracellular membraneless organelle postsynaptic specialization, intracellular component membraneless organelle axon axon terminus distal axon terminal bouton neuron projection terminus
A, C	Glutamate receptor ionotropic, NMDA 1	transmitter-gated monoatomic ion channel activity molecular transducer activity gated channel activity monoatomic ion channel activity signaling receptor activity neurotransmitter receptor activity ligand-gated channel activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity passive transmembrane transporter activity channel activity transmitter-gated channel activity monoatomic ion transmembrane transporter activity transporter activity transmitter-gated monoatomic ion channel activity molecular transducer activity gated channel activity monoatomic ion channel activity signaling receptor activity neurotransmitter receptor activity ligand-gated channel activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity passive transmembrane transporter activity channel activity transmitter-gated 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 voltage-gated channel activity voltage-gated monoatomic ion channel activity glutamate-gated receptor activity transmembrane signaling receptor activity NMDA glutamate receptor activity glutamate receptor activity carboxylic acid transmembrane transporter activity amino acid 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 ligand-gated sodium channel activity sodium channel activity sodium ion transmembrane transporter activity ligand-gated monoatomic cation channel activity glutamate receptor binding ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential ligand-gated calcium 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 transport monoatomic ion transmembrane transport establishment of localization calcium ion transport metal ion transport monoatomic cation transmembrane transport transmembrane transport localization monoatomic ion transport monoatomic cation transport calcium ion transmembrane transport protein localization to postsynaptic membrane protein localization to cell periphery cellular localization protein localization to synapse localization within membrane protein localization to membrane macromolecule localization protein localization to postsynapse intracellular protein localization 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 chemical response to nitrogen 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 regulation of monoatomic ion 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 positive regulation of monoatomic ion transmembrane 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 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 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 metal ion cellular response to chemical stimulus response to metal ion cellular response to manganese ion response to manganese ion sodium ion transmembrane transport sodium ion transport 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 positive regulation of reactive oxygen species biosynthetic process reactive oxygen species 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 response to decreased oxygen levels response to hypoxia response to stress response to oxygen levels response to abiotic stimulus positive regulation of DNA-templated transcription RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II primary metabolic process regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription 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 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 xenobiotic metabolic process response to xenobiotic stimulus hydrocarbon metabolic process olefinic compound metabolic process olefin metabolic process response to alcohol response to ethanol long-term memory rhythmic process cellular response to acid chemical cellular response to nitrogen compound cellular response to amino acid stimulus cellular response to glycine cellular response to oxygen-containing compound response to glycoside	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 parallel fiber to Purkinje cell synapse excitatory synapse protein-containing complex neurotransmitter receptor complex plasma membrane protein complex plasma membrane signaling receptor complex membrane protein complex receptor complex 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 transmembrane transporter complex transporter complex monoatomic ion channel complex NMDA selective glutamate receptor complex ionotropic glutamate receptor 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

InterPro: Protein Family Classification InterPro Database Homepage

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

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

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.

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.id_divider{ color: #ccc; padding: 0 10px 0 10px; } .extended_id_info{ color: #ccc; font-size: 18px; position: relative; top: -10px; left: 4px; } 6MMT | pdb_00006mmt

Triheteromeric NMDA receptor GluN1/GluN2A/GluN2A* in the '1-Knuckle' conformation, in complex with glycine and glutamate, in the presence of 1 micromolar zinc chloride, and at pH 7.4

External Resource: Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Domain Annotation: ECOD Classification ECOD 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

6MMT | pdb_00006mmt