6DLZ | pdb_00006dlz

Open state GluA2 in complex with STZ after micelle signal subtraction

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
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)
A	SCOP2B Superfamily	Claudin-like	8100754	3002606	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Type 2 solute binding protein-like	8036483	3000083	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Claudin-like	8100754	3002606	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Type 2 solute binding protein-like	8036483	3000083	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Claudin-like	8100754	3002606	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Type 2 solute binding protein-like	8036483	3000083	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Type 2 solute binding protein-like	8036483	3000083	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Claudin-like	8100754	3002606	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	PMP22_Claudin	e6dlzA5	A: alpha bundles	X: Bromodomain-like	H: Claudin (From Topology)	T: Claudin	F: PMP22_Claudin	ECOD (1.6)
A	Lig_chan	e6dlzA3	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_2nd,ANF_receptor_1st	e6dlzA4	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,ANF_receptor_1st	ECOD (1.6)
A	ANF_receptor_1st	e6dlzA2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: ANF_receptor_1st	ECOD (1.6)
A	SBP_bac_3_1st	e6dlzA1	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)
B	PMP22_Claudin	e6dlzB2	A: alpha bundles	X: Bromodomain-like	H: Claudin (From Topology)	T: Claudin	F: PMP22_Claudin	ECOD (1.6)
B	Lig_chan	e6dlzB4	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_2nd,ANF_receptor_1st	e6dlzB1	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,ANF_receptor_1st	ECOD (1.6)
B	ANF_receptor_1st	e6dlzB5	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: ANF_receptor_1st	ECOD (1.6)
B	SBP_bac_3_1st	e6dlzB3	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	PMP22_Claudin	e6dlzC2	A: alpha bundles	X: Bromodomain-like	H: Claudin (From Topology)	T: Claudin	F: PMP22_Claudin	ECOD (1.6)
C	Lig_chan	e6dlzC1	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_2nd,ANF_receptor_1st	e6dlzC4	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,ANF_receptor_1st	ECOD (1.6)
C	ANF_receptor_1st	e6dlzC3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: ANF_receptor_1st	ECOD (1.6)
C	SBP_bac_3_1st	e6dlzC5	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)
D	PMP22_Claudin	e6dlzD1	A: alpha bundles	X: Bromodomain-like	H: Claudin (From Topology)	T: Claudin	F: PMP22_Claudin	ECOD (1.6)
D	Lig_chan	e6dlzD3	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_2nd,ANF_receptor_1st	e6dlzD2	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,ANF_receptor_1st	ECOD (1.6)
D	ANF_receptor_1st	e6dlzD5	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Periplasmic binding protein-like I	F: ANF_receptor_1st	ECOD (1.6)
D	SBP_bac_3_1st	e6dlzD4	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)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.140.150	Mainly Alpha	Up-down Bundle	Butyryl-CoA Dehydrogenase, subunit A	domain 3	CATH (utative)
B	1.20.140.150	Mainly Alpha	Up-down Bundle	Butyryl-CoA Dehydrogenase, subunit A	domain 3	CATH (utative)
C	1.20.140.150	Mainly Alpha	Up-down Bundle	Butyryl-CoA Dehydrogenase, subunit A	domain 3	CATH (utative)
D	1.20.140.150	Mainly Alpha	Up-down Bundle	Butyryl-CoA Dehydrogenase, subunit A	domain 3	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00822	PMP-22/EMP/MP20/Claudin family (PMP22_Claudin)	PMP-22/EMP/MP20/Claudin family	-	Family
A, B, C, D	PF00060	Ligand-gated ion channel (Lig_chan)	Ligand-gated ion channel	-	Family
A, B, C, D	PF01094	Receptor family ligand binding region (ANF_receptor)	Receptor family ligand binding region	-	Family
A, B, C, 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, B, C, D	Glutamate receptor 2,Voltage-dependent calcium channel gamma-2 subunit	calcium channel activity monoatomic cation transmembrane transporter activity voltage-gated calcium channel activity gated channel activity monoatomic ion channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity voltage-gated monoatomic cation channel activity monoatomic cation channel activity passive transmembrane transporter activity calcium ion transmembrane transporter activity inorganic molecular entity transmembrane transporter activity channel activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity calcium channel activity monoatomic cation transmembrane transporter activity voltage-gated calcium channel activity gated channel activity monoatomic ion channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity voltage-gated monoatomic cation channel activity monoatomic cation channel activity passive transmembrane transporter activity calcium ion transmembrane transporter activity inorganic molecular entity transmembrane transporter activity channel activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity metal ion transmembrane transporter activity transmembrane transporter activity ionotropic glutamate receptor binding protein binding binding signaling receptor binding glutamate receptor binding channel regulator activity molecular function regulator activity transporter regulator activity transmitter-gated monoatomic ion channel activity molecular transducer activity glutamate-gated receptor activity neurotransmitter receptor activity ligand-gated channel activity AMPA glutamate receptor activity transmembrane signaling receptor activity glutamate receptor 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 transmitter-gated channel activity organic acid transmembrane transporter activity organic anion transmembrane transporter activity amide binding amyloid-beta binding peptide binding cytoskeletal protein binding excitatory extracellular ligand-gated monoatomic ion channel activity extracellularly glutamate-gated ion channel activity protein-containing complex binding immunoglobulin binding identical protein binding ligand-gated monoatomic cation channel activity PDZ domain binding protein domain specific binding ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential scaffold protein binding ligand-gated calcium channel activity glutamate-gated calcium ion channel activity SNARE binding kinase binding enzyme binding protein kinase binding transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential postsynaptic neurotransmitter receptor activity neurotransmitter receptor activity involved in regulation of postsynaptic membrane potential sodium channel activity kainate selective glutamate receptor activity potassium ion transmembrane transporter activity ligand-gated sodium channel activity sodium ion transmembrane transporter activity potassium channel activity	protein localization protein localization to postsynaptic specialization membrane cellular localization protein localization to postsynaptic membrane protein localization to cell periphery protein localization to synapse biological regulation localization within membrane protein localization to membrane protein-containing complex localization neurotransmitter receptor localization to postsynaptic specialization membrane localization regulation of postsynaptic membrane neurotransmitter receptor levels protein localization to organelle cellular macromolecule localization protein localization protein localization to postsynaptic specialization membrane cellular localization protein localization to postsynaptic membrane protein localization to cell periphery protein localization to synapse biological regulation localization within membrane protein localization to membrane protein-containing complex localization neurotransmitter receptor localization to postsynaptic specialization membrane localization regulation of postsynaptic membrane neurotransmitter receptor levels protein localization to organelle cellular macromolecule localization macromolecule localization cellular process protein localization to postsynapse regulation of biological quality protein localization to cell junction receptor localization to synapse reflex response to stimulus response to external stimulus eye blink reflex neurotransmitter receptor diffusion trapping receptor diffusion trapping postsynaptic neurotransmitter receptor diffusion trapping response to metal ion response to chemical response to calcium ion positive regulation of cell communication regulation of cellular process signaling modulation of chemical synaptic transmission synaptic transmission, glutamatergic positive regulation of biological process regulation of synaptic transmission, glutamatergic cell communication synaptic signaling positive regulation of cellular process trans-synaptic signaling regulation of signaling regulation of biological process positive regulation of synaptic transmission cell-cell signaling positive regulation of synaptic transmission, glutamatergic chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication positive regulation of signaling cellular response to stimulus regulation of localization transport regulation of signaling receptor activity regulation of AMPA receptor activity regulation of transmembrane transporter activity regulation of signal transduction regulation of transporter activity signal transduction regulation of monoatomic ion transmembrane transporter activity regulation of transport establishment of localization transmembrane transport regulation of molecular function regulation of transmembrane transport regulation of response to stimulus regulation of neurotransmitter receptor activity cellular component organization cell junction organization neuromuscular junction development synapse organization cellular component organization or biogenesis establishment of protein localization establishment of protein localization to membrane protein targeting protein targeting to membrane positive regulation of protein localization to basolateral plasma membrane regulation of protein localization protein localization to basolateral plasma membrane regulation of protein localization to membrane positive regulation of protein localization to cell periphery regulation of protein localization to basolateral plasma membrane positive regulation of protein localization to membrane regulation of protein localization to cell periphery regulation of cellular localization positive regulation of protein localization multicellular organismal process system process nervous system process transmission of nerve impulse membrane hyperpolarization regulation of membrane potential nitrogen compound transport endosome to lysosome transport establishment of protein localization to vacuole neurotransmitter receptor transport, postsynaptic endosome to lysosome lysosomal transport vesicle-mediated transport establishment of localization in cell neurotransmitter receptor transport protein localization to vacuole intracellular transport protein localization to lysosome establishment of protein localization to organelle protein transport vacuolar transport intracellular protein transport membrane depolarization import into cell receptor internalization neurotransmitter receptor internalization receptor-mediated endocytosis endocytosis cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein tetramerization protein-containing complex assembly cellular response to endogenous stimulus cellular response to growth factor stimulus response to endogenous stimulus cellular response to nerve growth factor stimulus cellular response to brain-derived neurotrophic factor stimulus response to nerve growth factor response to growth factor response to lithium ion developmental process head development forebrain development animal organ development brain development nervous system development pallium development cerebral cortex development multicellular organism development central nervous system development anatomical structure development telencephalon development system development regulation of receptor recycling regulation of macromolecule metabolic process receptor recycling receptor metabolic process metabolic process macromolecule metabolic process regulation of metabolic process response to antibiotic response to fungicide response to toxic substance cellular response to acid chemical cellular response to nitrogen compound cellular response to amino acid stimulus response to glycine response to oxygen-containing compound response to nitrogen compound response to amino acid cellular response to glycine cellular response to oxygen-containing compound response to acid chemical cellular response to chemical stimulus ligand-gated ion channel signaling pathway cell surface receptor signaling pathway ionotropic glutamate receptor signaling pathway glutamate receptor signaling pathway	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 somatodendritic compartment protein-containing complex plasma membrane protein complex membrane protein complex transporter complex receptor complex AMPA glutamate receptor complex ionotropic glutamate receptor complex neurotransmitter receptor complex transmembrane transporter complex plasma membrane signaling receptor complex monoatomic ion channel complex cell surface glutamatergic synapse membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle cytoplasmic vesicle vesicle membrane endocytic vesicle membrane cytoplasm vesicle organelle membrane endocytic vesicle hippocampal mossy fiber to CA3 synapse Schaffer collateral - CA1 synapse voltage-gated calcium channel complex cation channel complex calcium channel complex axon cell projection neuron projection cerebellar mossy fiber plasma membrane bounded cell projection cell body perikaryon neuronal cell body presynapse presynaptic membrane dendrite dendritic tree extracellular region perisynaptic space spine synapse dendritic shaft neuron spine dendritic spine transport vesicle membrane endomembrane system synaptic vesicle synaptic vesicle membrane transport vesicle exocytic vesicle membrane secretory vesicle exocytic vesicle dendritic spine neck axon terminus distal axon terminal bouton neuron projection terminus dendritic spine head growth cone site of polarized growth neuron projection cytoplasm cytoplasmic region plasma membrane bounded cell projection cytoplasm dendrite cytoplasm presynaptic active zone membrane presynaptic active zone cell leading edge leading edge membrane neuron projection membrane dendrite membrane cell projection membrane endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR051072	Voltage-dependent calcium channel gamma subunit	Family
A, B, C, D	IPR004031	PMP-22/EMP/MP20/Claudin	Family
A, B, C, D	IPR005422	Voltage-dependent calcium channel, gamma-2 subunit	Family
A, B, C, D	IPR008368	Voltage-dependent calcium channel, gamma subunit	Family
A, B, C, D	IPR028082	Periplasmic binding protein-like I	Homologous Superfamily
A, B, C, D	IPR001508	Ionotropic glutamate receptor, metazoa	Family
A, B, C, D	IPR001828	Receptor, ligand binding region	Domain
A, B, C, D	IPR001320	Ionotropic glutamate receptor, C-terminal	Domain
A, B, C, D	IPR019594	Ionotropic glutamate receptor, L-glutamate and glycine-binding domain	Domain
A, B, C, D	IPR015683	Ionotropic glutamate receptor	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: Q9Y698	intellectual disability, autosomal dominant 10 intellectual disability astrocytic tumor lung carcinoma pilocytic astrocytoma schizophrenia atypical teratoid rhabdoid tumor malignant ependymoma primitive neuroectodermal tumor subependymal giant cell astrocytoma glioblastoma large cell medulloblastoma malignant glioma psoriasis