5EHM

Crystal structure of the Drosophila CG3822 KaiR1D ligand binding domain complex with NMDA

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d5ehma_	Alpha and beta proteins (a/b)	Periplasmic binding protein-like II	Periplasmic binding protein-like II	automated matches	automated matches	Fruit fly (Drosophila melanogaster ) [TaxId: 7227 ], Fruit fly (Drosophila melanogaster ) [TaxId: 7227 ],	SCOPe (2.08)
B	d5ehmb_	Alpha and beta proteins (a/b)	Periplasmic binding protein-like II	Periplasmic binding protein-like II	automated matches	automated matches	Fruit fly (Drosophila melanogaster ) [TaxId: 7227 ], Fruit fly (Drosophila melanogaster ) [TaxId: 7227 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Phosphate binding protein-like	8100693	4000229	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Type 2 solute binding protein-like	8100694	3000083	SCOP2 (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	Lig_chan_3	e5ehmA1	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_3	ECOD (1.6)
A	SBP_bac_3_1st	e5ehmA2	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	Lig_chan_3	e5ehmB2	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_3	ECOD (1.6)
B	SBP_bac_3_1st	e5ehmB1	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	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (4.3.0)
B	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	RE06730p,CG3822	glutamate receptor activity molecular transducer activity transmembrane signaling receptor activity signaling receptor activity transmitter-gated monoatomic ion channel activity gated channel activity monoatomic ion channel activity transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential neurotransmitter receptor activity ligand-gated channel activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity postsynaptic neurotransmitter receptor activity passive transmembrane transporter activity glutamate receptor activity molecular transducer activity transmembrane signaling receptor activity signaling receptor activity transmitter-gated monoatomic ion channel activity gated channel activity monoatomic ion channel activity transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential neurotransmitter receptor activity ligand-gated channel activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity postsynaptic neurotransmitter receptor activity passive transmembrane transporter activity neurotransmitter receptor activity involved in regulation of postsynaptic membrane potential channel activity transmitter-gated channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity monoatomic cation transmembrane transporter activity glutamate-gated receptor activity inorganic molecular entity transmembrane transporter activity ligand-gated calcium channel activity inorganic cation transmembrane transporter activity ligand-gated monoatomic cation channel activity calcium channel activity glutamate-gated calcium ion channel activity carboxylic acid transmembrane transporter activity amino acid transmembrane transporter activity monoatomic cation channel activity calcium ion transmembrane transporter activity metal ion transmembrane transporter activity organic acid transmembrane transporter activity organic anion transmembrane transporter activity 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	import into cell calcium ion transmembrane import into cytosol transport monoatomic ion transmembrane transport import across plasma membrane inorganic ion transmembrane transport establishment of localization inorganic cation import across plasma membrane calcium ion transport metal ion transport inorganic cation transmembrane transport transmembrane transport monoatomic cation transmembrane transport localization calcium ion import across plasma membrane import into cell calcium ion transmembrane import into cytosol transport monoatomic ion transmembrane transport import across plasma membrane inorganic ion transmembrane transport establishment of localization inorganic cation import across plasma membrane calcium ion transport metal ion transport inorganic cation transmembrane transport transmembrane transport monoatomic cation transmembrane transport localization calcium ion import across plasma membrane inorganic ion import across plasma membrane monoatomic ion transport cellular process calcium ion import calcium ion import into cytosol monoatomic cation transport calcium ion transmembrane transport trans-synaptic signaling regulation of biological process regulation of signaling regulation of cellular process modulation of chemical synaptic transmission signaling biological regulation cell-cell signaling chemical synaptic transmission cell communication synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication presynaptic modulation of chemical synaptic transmission regulation of synaptic activity regulation of synapse structure or activity regulation of biological quality positive regulation of cell communication synaptic transmission, glutamatergic positive regulation of biological process regulation of synaptic transmission, glutamatergic positive regulation of cellular process positive regulation of synaptic transmission positive regulation of synaptic transmission, glutamatergic positive regulation of signaling regulation of localization nitrogen compound transport regulation of glutamate secretion positive regulation of neurotransmitter secretion positive regulation of amine transport establishment of localization in cell regulation of amino acid transport glutamate secretion positive regulation of neurotransmitter transport carboxylic acid transport neurotransmitter secretion neurotransmitter transport regulation of secretion organic acid transport acidic amino acid transport signal release from synapse glutamate secretion, neurotransmission positive regulation of glutamate secretion, neurotransmission positive regulation of amino acid transport dicarboxylic acid transport cellular localization L-amino acid transport positive regulation of secretion by cell L-glutamate import secretion by cell regulation of secretion by cell positive regulation of secretion signal release organic anion transport secretion regulation of transport regulation of neurotransmitter transport export from cell positive regulation of glutamate secretion positive regulation of organic acid transport amino acid transport amine transport positive regulation of transport regulation of glutamate secretion, neurotransmission regulation of neurotransmitter secretion regulation of organic acid transport regulation of amine transport positive regulation of neuromuscular synaptic transmission regulation of neuromuscular synaptic transmission neuromuscular synaptic transmission	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 presynapse presynaptic active zone presynaptic membrane

InterPro: Protein Family Classification InterPro Database Homepage

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

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.