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 9PZW | pdb_00009pzw

GluN1/GluN2A in complex with 3D2 Fab, glycine and glutamate-bound state

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
F [auth D]SCOP2B SuperfamilyType 2 solute binding protein-like 8036603 3000083 SCOP2B (2022-06-29)
D [auth B]SCOP2B SuperfamilyType 2 solute binding protein-like 8036603 3000083 SCOP2B (2022-06-29)
E [auth C]SCOP2B SuperfamilyType 2 solute binding protein-like 8034027 3000083 SCOP2B (2022-06-29)
C [auth A]SCOP2B SuperfamilyType 2 solute binding protein-like 8034027 3000083 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
F [auth D]Fer2e9pzwD1 A: alpha arraysX: Hypothetical protein YqbG-likeH: Hypothetical protein YqbG-likeT: alpha/beta-HydrolasesF: Fer2ECOD (v295.2)
D [auth B]Fer2e9pzwB1 A: alpha arraysX: Hypothetical protein YqbG-likeH: Hypothetical protein YqbG-likeT: alpha/beta-HydrolasesF: Fer2ECOD (v295.2)
E [auth C]7tm_2e9pzwC1 A: alpha arraysX: Hypothetical protein YqbG-likeH: Hypothetical protein YqbG-likeT: alpha/beta-HydrolasesF: 7tm_2ECOD (v295.2)
C [auth A]7tm_2e9pzwA1 A: alpha arraysX: Hypothetical protein YqbG-likeH: Hypothetical protein YqbG-likeT: alpha/beta-HydrolasesF: 7tm_2ECOD (v295.2)
H [auth M]FliD_Ce9pzwM1 A: alpha arraysX: Hypothetical protein YqbG-likeH: Hypothetical protein YqbG-likeT: alpha/beta-HydrolasesF: FliD_CECOD (v295.2)
B [auth K]FliD_Ce9pzwK1 A: alpha arraysX: Hypothetical protein YqbG-likeH: Hypothetical protein YqbG-likeT: alpha/beta-HydrolasesF: FliD_CECOD (v295.2)
G [auth L]Fer2e9pzwL1 A: alpha arraysX: Hypothetical protein YqbG-likeH: Hypothetical protein YqbG-likeT: alpha/beta-HydrolasesF: Fer2ECOD (v295.2)
A [auth J]Fer2e9pzwJ1 A: alpha arraysX: Hypothetical protein YqbG-likeH: Hypothetical protein YqbG-likeT: alpha/beta-HydrolasesF: Fer2ECOD (v295.2)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
B [auth K],
H [auth M]		Light ChainIGKV3 Kappaglutamate receptor ionotropic, nmda 2aSAbDab (2026-10-09)
A [auth J],
G [auth L]		Heavy ChainIGHV1 -glutamate receptor ionotropic, nmda 2aSAbDab (2026-10-09)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
D [auth B],
F [auth D]		PF01094Receptor family ligand binding region (ANF_receptor)Receptor family ligand binding regionThis 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 [auth B],
F [auth D]		PF10613Ligated ion channel L-glutamate- and glycine-binding site (Lig_chan-Glu_bd)Ligated ion channel L-glutamate- and glycine-binding siteThis 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
C [auth A],
E [auth C]		PF01094Receptor family ligand binding region (ANF_receptor)Receptor family ligand binding regionThis 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
C [auth A],
E [auth C]		PF10613Ligated ion channel L-glutamate- and glycine-binding site (Lig_chan-Glu_bd)Ligated ion channel L-glutamate- and glycine-binding siteThis 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

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
D [auth B],
F [auth D]		Glutamate receptor ionotropic, NMDA 2A
C [auth A],
E [auth C]		Glutamate receptor ionotropic, NMDA 1
B [auth K],
H [auth M]		Light chain of GluN2A-specific monoclonal Fab fragment, termed 3D2---
A [auth J],
G [auth L]		Heavy chain of GluN2A-specific monoclonal Fab fragment, termed 3D2---

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
D [auth B],
F [auth D]		IPR018884Glutamate [NMDA] receptor, epsilon subunit, C-terminalDomain
D [auth B],
F [auth D]		IPR028082Periplasmic binding protein-like IHomologous Superfamily
D [auth B],
F [auth D]		IPR001828Receptor, ligand binding regionDomain
D [auth B],
F [auth D]		IPR001320Ionotropic glutamate receptor, C-terminalDomain
D [auth B],
F [auth D]		IPR019594Ionotropic glutamate receptor, L-glutamate and glycine-binding domainDomain
D [auth B],
F [auth D]		IPR001508Ionotropic glutamate receptor, metazoaFamily
D [auth B],
F [auth D]		IPR015683Ionotropic glutamate receptorFamily
C [auth A],
E [auth C]		IPR028082Periplasmic binding protein-like IHomologous Superfamily
C [auth A],
E [auth C]		IPR001828Receptor, ligand binding regionDomain
C [auth A],
E [auth C]		IPR001320Ionotropic glutamate receptor, C-terminalDomain
C [auth A],
E [auth C]		IPR049873Glutamate [NMDA] receptor subunit 1-like, N-terminal LIVBP-like domainDomain
C [auth A],
E [auth C]		IPR019594Ionotropic glutamate receptor, L-glutamate and glycine-binding domainDomain
C [auth A],
E [auth C]		IPR001508Ionotropic glutamate receptor, metazoaFamily
C [auth A],
E [auth C]		IPR015683Ionotropic glutamate receptorFamily
C [auth A],
E [auth C]		IPR049872Glutamate [NMDA] receptor subunit 1-like, ligand-binding domainDomain