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Protein Structures and Oligomeric States

Enter a protein name, UniProt accession or PDB ID. Name searches ask you to confirm the protein identity before related structures are queried.

Current Protein Identity：Q12879 New Search
36PDB entries
41Biological assembly
74chain/assembly records
Main Difference Dimensions in This Set
Different construct Different mutation/modification Different assembly state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics

Difference tags compare only the current result set; every original PDB and assembly record remains separate.

Related-Structure Differences

Each row represents one biological assembly in one PDB entry; multiple monomers of the same protein are listed separately.

PDB Entry Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Experimental Method Experimental Conditions Structure Quality
3NFL Crystal structure of the PTPN4 PDZ domain complexed with the C-terminus of the GluN2A NMDA receptor subunit Deposited 2010-06-10 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain E 1449–1464（16 aa） Fragment：UNP residues 1449-1464
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；291 K；24% PEG 4000, 0.2M ammonium sulfate, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Resolution 1.91 Å R-free 0.246
3NFL Crystal structure of the PTPN4 PDZ domain complexed with the C-terminus of the GluN2A NMDA receptor subunit Deposited 2010-06-10 Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain F 1449–1464（16 aa） Fragment：UNP residues 1449-1464
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；291 K；24% PEG 4000, 0.2M ammonium sulfate, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Resolution 1.91 Å R-free 0.246
3NFL Crystal structure of the PTPN4 PDZ domain complexed with the C-terminus of the GluN2A NMDA receptor subunit Deposited 2010-06-10 Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain G 1449–1464（16 aa） Fragment：UNP residues 1449-1464
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；291 K；24% PEG 4000, 0.2M ammonium sulfate, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Resolution 1.91 Å R-free 0.246
3NFL Crystal structure of the PTPN4 PDZ domain complexed with the C-terminus of the GluN2A NMDA receptor subunit Deposited 2010-06-10 Assembly 4 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain H 1449–1464（16 aa） Fragment：UNP residues 1449-1464
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；291 K；24% PEG 4000, 0.2M ammonium sulfate, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Resolution 1.91 Å R-free 0.246
3NFL Crystal structure of the PTPN4 PDZ domain complexed with the C-terminus of the GluN2A NMDA receptor subunit Deposited 2010-06-10 Assembly 5 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain E 1449–1464（16 aa） Fragment：UNP residues 1449-1464
Chain H 1449–1464（16 aa） Fragment：UNP residues 1449-1464
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；291 K；24% PEG 4000, 0.2M ammonium sulfate, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Resolution 1.91 Å R-free 0.246
3NFL Crystal structure of the PTPN4 PDZ domain complexed with the C-terminus of the GluN2A NMDA receptor subunit Deposited 2010-06-10 Assembly 6 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain F 1449–1464（16 aa） Fragment：UNP residues 1449-1464
Chain G 1449–1464（16 aa） Fragment：UNP residues 1449-1464
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；291 K；24% PEG 4000, 0.2M ammonium sulfate, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Resolution 1.91 Å R-free 0.246
5H8F Structure of the apo human GluN1/GluN2A LBD Deposited 2015-12-23 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 401–539（139 aa） Fragment：UNP residues 401-539, GT linker, UNP residues 661-802
Chain A 661–802（142 aa） Fragment：UNP residues 401-539, GT linker, UNP residues 661-802
Not recorded GOL GLYCEROL × 6 GLU GLUTAMIC ACID × 1 GLY GLYCINE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277 K；1:2 v/v protein to mother liquor (0.1 M HEPES, pH 7.0, 10-13% PEG8000, 2 mM calcium acetate)
Resolution 1.81 Å R-free 0.207
5H8H Structure of the human GluN1/GluN2A LBD in complex with GNE3419 Deposited 2015-12-23 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 401–539（139 aa） Fragment：UNP residues 401-539, GT linker, UNP residues 661-802
Chain A 661–802（142 aa） Fragment：UNP residues 401-539, GT linker, UNP residues 661-802
Not recorded ACT ACETATE ION × 1 GLU GLUTAMIC ACID × 1 CA CALCIUM ION × 1 GLY GLYCINE × 1 5YC 7-[[ethyl(phenyl)amino]methyl]-2-methyl-[1,3,4]thiadiazolo[3,2-a]pyrimidin-5-one × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277 K；1:2 v/v protein to mother liquor (0.1 M HEPES, pH 7.0, 10-13% PEG8000, 2 mM calcium acetate)
Resolution 2.23 Å R-free 0.227
5H8N Structure of the human GluN1/GluN2A LBD in complex with NAM Deposited 2015-12-23 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 401–539（139 aa） Fragment：UNP residues 401-539, GT linker, UNP residues 661-802
Chain A 661–802（142 aa） Fragment：UNP residues 401-539, GT linker, UNP residues 661-802
Not recorded GLU GLUTAMIC ACID × 1 5YD 4-[[(4-fluorophenyl)sulfonylamino]methyl]-~{N}-(pyridin-3-ylmethyl)benzamide × 1 CA CALCIUM ION × 1 GLY GLYCINE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277 K；1:2 v/v protein to mother liquor (0.1 M HEPES, pH 7.0, 10-13% PEG8000, 2 mM calcium acetate)
Resolution 2.50 Å R-free 0.236
5H8Q Structure of the human GluN1/GluN2A LBD in complex with GNE8324 Deposited 2015-12-23 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 401–539（139 aa） Fragment：UNP residues 401-539, GT linker, UNP residues 661-802
Chain A 661–802（142 aa） Fragment：UNP residues 401-539, GT linker, UNP residues 661-802
Not recorded ACT ACETATE ION × 1 GLU GLUTAMIC ACID × 1 GLY GLYCINE × 1 5YE 6-[[ethyl-(4-fluorophenyl)amino]methyl]-2,3-dihydro-1~{H}-cyclopenta[3,4][1,3]thiazolo[1,4-~{a}]pyrimidin-8-one × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277 K；1:2 v/v protein to mother liquor (0.1 M HEPES, pH 7.0, 10-13% PEG8000, 2 mM calcium acetate)
Resolution 1.90 Å R-free 0.209
5I2K Structure of the human GluN1/GluN2A LBD in complex with 7-{[ethyl(4-fluorophenyl)amino]methyl}-N,2-dimethyl-5-oxo-5H-[1,3]thiazolo[3,2-a]pyrimidine-3-carboxamide (compound 19) Deposited 2016-02-09 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 401–539（139 aa） Fragment：UNP residues 401-539, GT linker, UNP residues 661-802
Chain A 661–802（142 aa） Fragment：UNP residues 401-539, GT linker, UNP residues 661-802
Not recorded GLU GLUTAMIC ACID × 1 GLY GLYCINE × 1 67H 7-{[ethyl(4-fluorophenyl)amino]methyl}-N,2-dimethyl-5-oxo-5H-[1,3]thiazolo[3,2-a]pyrimidine-3-carboxamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277 K；1:2 v/v protein to mother liquor (0.1 M HEPES, pH 7.0, 10-13% PEG8000, 2 mM calcium acetate)
Resolution 2.86 Å R-free 0.256
5I2N Structure of the human GluN1/GluN2A LBD in complex with N-ethyl-7-{[2-fluoro-3-(trifluoromethyl)phenyl]methyl}-2-methyl-5-oxo-5H-[1,3]thiazolo[3,2-a]pyrimidine-3-carboxamide (compound 29) Deposited 2016-02-09 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 401–539（139 aa） Fragment：UNP residues 401-539, GT linker, UNP residues 661-802
Chain A 661–802（142 aa） Fragment：UNP residues 401-539, GT linker, UNP residues 661-802
Not recorded CA CALCIUM ION × 1 GLU GLUTAMIC ACID × 1 67J N-ethyl-7-{[2-fluoro-3-(trifluoromethyl)phenyl]methyl}-2-methyl-5-oxo-5H-[1,3]thiazolo[3,2-a]pyrimidine-3-carboxamide × 1 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 GLY GLYCINE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277 K；1:2 v/v protein to mother liquor (0.1 M HEPES, pH 7.0, 10-13% PEG8000, 2 mM calcium acetate)
Resolution 2.12 Å R-free 0.223
5KCJ Structure of the human GluN1/GluN2A LBD in complex with GNE6901 Deposited 2016-06-06 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 401–539（139 aa） Fragment：Ligand binding domain (UNP residues 401-539, GT linker, UNP residues 661-802)
Chain A 661–802（142 aa） Fragment：Ligand binding domain (UNP residues 401-539, GT linker, UNP residues 661-802)
Not recorded ACT ACETATE ION × 1 GLU GLUTAMIC ACID × 1 GLY GLYCINE × 1 6RM 7-[(4-fluoranylphenoxy)methyl]-3-[(1~{R},2~{R})-2-(hydroxymethyl)cyclopropyl]-2-methyl-[1,3]thiazolo[3,2-a]pyrimidin-5-one × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277 K；0.1 M HEPES, pH 7.0, 10-13% PEG8000, 2 mM calcium acetate
Resolution 2.09 Å R-free 0.225
5KDT Structure of the human GluN1/GluN2A LBD in complex with GNE0723 Deposited 2016-06-08 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 401–539（139 aa） Fragment：Ligand binding domain (UNP residues 401-539, GT linker, UNP residues 661-802)
Chain A 661–802（142 aa） Fragment：Ligand binding domain (UNP residues 401-539, GT linker, UNP residues 661-802)
Not recorded ACT ACETATE ION × 1 GLU GLUTAMIC ACID × 1 6RV (1~{R},2~{R})-2-[7-[[5-chloranyl-3-(trifluoromethyl)pyrazol-1-yl]methyl]-5-oxidanylidene-2-(trifluoromethyl)-[1,3]thiazolo[3,2-a]pyrimidin-3-yl]cyclopropane-1-carbonitrile × 1 GLY GLYCINE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277 K；0.1 M HEPES, pH 7.0, 10-13% PEG8000, 2 mM calcium acetate
Resolution 2.44 Å R-free 0.240
5TP9 Structure of the human GluN1/GluN2A LBD in complex with compound 2 (GNE9178) Deposited 2016-10-20 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 401–539（139 aa） Fragment：Ligand binding domain (UNP residues 401-539, GT linker, UNP residues 661-802)
Chain A 661–802（142 aa） Fragment：Ligand binding domain (UNP residues 401-539, GT linker, UNP residues 661-802)
Not recorded ACT ACETATE ION × 1 GLU GLUTAMIC ACID × 1 7H0 7-{[5-chloro-3-(trifluoromethyl)-1H-pyrazol-1-yl]methyl}-N-ethyl-2-methyl-5-oxo-5H-[1,3]thiazolo[3,2-a]pyrimidine-3-carboxamide × 1 CA CALCIUM ION × 1 GLY GLYCINE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277 K；0.1 M HEPES, pH 7.0, 10-13% PEG8000, 2 mM calcium acetate
Resolution 2.40 Å R-free 0.237
5TPA Structure of the human GluN1/GluN2A LBD in complex with compound 9 (GNE3500) Deposited 2016-10-20 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 401–539（139 aa） Fragment：Ligand binding domain (UNP residues 401-539, GT linker, UNP residues 661-802)
Chain A 661–802（142 aa） Fragment：Ligand binding domain (UNP residues 401-539, GT linker, UNP residues 661-802)
Not recorded GLU GLUTAMIC ACID × 1 7H2 (1R,2R)-2-(2-{[5-chloro-3-(trifluoromethyl)-1H-pyrazol-1-yl]methyl}-7-methyl-4-oxo-4H-pyrido[1,2-a]pyrimidin-6-yl)cyclopropane-1-carbonitrile × 1 GLY GLYCINE × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277 K；0.1 M HEPES, pH 7.0, 10-13% PEG8000, 2 mM calcium acetate
Resolution 2.48 Å R-free 0.241
6IRA Structure of the human GluN1/GluN2A NMDA receptor in the glutamate/glycine-bound state at pH 7.8 Deposited 2018-11-12 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain B 1–842（842 aa）
Chain D 1–842（842 aa）
Mutation：E656R, E657R Mutation：E656R, E657R No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.8；Solutions were made fresh.
cryo-EM vitrification conditions Cryogen ETHANE；blot for 2 seconds before plunging in liquid ethane.
Resolution 4.50 Å
6IRF Structure of the human GluN1/GluN2A NMDA receptor in the glutamate/glycine-bound state at pH 6.3, Class I Deposited 2018-11-12 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain B 1–841（841 aa）
Chain D 1–841（841 aa）
Mutation：E656R, E657R Mutation：E656R, E657R No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 6.3；Solutions were made fresh.
cryo-EM vitrification conditions Cryogen ETHANE；blot for 2 seconds before plunging in liquid ethane
Resolution 5.10 Å
6IRG Structure of the human GluN1/GluN2A NMDA receptor in the glutamate/glycine-bound state at pH 6.3, Class II Deposited 2018-11-12 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain B 1–841（841 aa）
Chain D 1–841（841 aa）
Mutation：E656R, E657R Mutation：E656R, E657R No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 6.3；Solutions were made fresh.
cryo-EM vitrification conditions Cryogen ETHANE；blot for 2 seconds before plunging in liquid ethane
Resolution 5.50 Å
6IRH Structure of the human GluN1/GluN2A NMDA receptor in the glutamate/glycine-bound state at pH 6.3, Class III Deposited 2018-11-12 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain B 1–841（841 aa）
Chain D 1–841（841 aa）
Mutation：E656R, E657R Mutation：E656R, E657R No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 6.3；Solutions were made fresh.
cryo-EM vitrification conditions Cryogen ETHANE；blot for 2 seconds before plunging in liquid ethane
Resolution 7.80 Å
7EOQ Structure of the human GluN1/GluN2A NMDA receptor in the glycine/CPP bound state Deposited 2021-04-22 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain A 1–842（842 aa）
Chain C 1–842（842 aa）
Mutation：L794C Mutation：L794C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 8 7RC (2R)-4-(3-phosphonopropyl)piperazine-2-carboxylic acid × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.10 Å
7EOR Structure of the human GluN1/GluN2A NMDA receptor in the glycine/glutamate/GNE-6901 bound state Deposited 2021-04-22 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain A 1–842（842 aa）
Chain C 1–842（842 aa）
Mutation：L794C Mutation：L794C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 14 6RM 7-[(4-fluoranylphenoxy)methyl]-3-[(1~{R},2~{R})-2-(hydroxymethyl)cyclopropyl]-2-methyl-[1,3]thiazolo[3,2-a]pyrimidin-5-one × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.00 Å
7EOS Structure of the human GluN1/GluN2A NMDA receptor in the glycine/glutamate bound state Deposited 2021-04-22 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain A 1–842（842 aa）
Chain C 1–842（842 aa）
Mutation：L794C Mutation：L794C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.90 Å
7EOT Structure of the human GluN1/GluN2A NMDA receptor in the CGP-78608/glutamate bound state Deposited 2021-04-22 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain A 1–842（842 aa）
Chain C 1–842（842 aa）
Mutation：L794C Mutation：L794C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 16 J86 [(1S)-1-[[7-bromanyl-2,3-bis(oxidanylidene)-1,4-dihydroquinoxalin-5-yl]methylamino]ethyl]phosphonic acid × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
7EOU Structure of the human GluN1/GluN2A NMDA receptor in the glycine/glutamate/GNE-6901/9-AA bound state Deposited 2021-04-22 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain A 1–842（842 aa）
Chain C 1–842（842 aa）
Mutation：L794C Mutation：L794C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 16 AA 9-AMINOACRIDINE × 1 6RM 7-[(4-fluoranylphenoxy)methyl]-3-[(1~{R},2~{R})-2-(hydroxymethyl)cyclopropyl]-2-methyl-[1,3]thiazolo[3,2-a]pyrimidin-5-one × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.30 Å
7EU7 Structure of the human GluN1-GluN2A NMDA receptor in complex with S-ketamine, glycine and glutamate Deposited 2021-05-16 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain B 1–841（841 aa）
Chain D 1–841（841 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 GLY GLYCINE × 2 GLU GLUTAMIC ACID × 2 JC9 (2~{S})-2-(2-chlorophenyl)-2-(methylamino)cyclohexan-1-one × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
8E99 Human GluN1a-GluN2A-GluN2C triheteromeric NMDA receptor in complex with Nb-4 Deposited 2022-08-26 Assembly 1 Other combination Heteromer；Protein × 5 PDB declaration: pentameric（5） Consistent with protein count
Chain B 30–851（822 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.24 Å
8JIZ Cryo-EM structure of GluN1-2A NMDAR in complex with human Fab5F6 in two fab bind conformation Deposited 2023-05-29 Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count
Chain A 1–841（841 aa）
Chain C 1–841（841 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 8 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
8JJ0 Cryo-EM structure of GluN1-2A NMDAR in complex with human Fab5F6 in one fab bind conformation Deposited 2023-05-29 Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain A 1–841（841 aa）
Chain C 1–841（841 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 8 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.50 Å
8JJ1 Cryo-EM structure of GluN1-2A NMDAR in complex with human Fab2G7 in two fab conformation Deposited 2023-05-29 Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count
Chain A 1–841（841 aa）
Chain C 1–841（841 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 11 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.77 Å
8JJ2 Cryo-EM structure of GluN1-2A NMDAR in complex with human Fab2G7 in one fab conformation Deposited 2023-05-29 Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain A 1–841（841 aa）
Chain C 1–841（841 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 8 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.30 Å
8VUH Human GluN1-2A IgG 003-102 splayed conformation Deposited 2024-01-29 Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count
Chain B 34–841（808 aa）
Chain D 34–841（808 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.42 Å
8VUJ Human GluN1-2A with Fab 003-102 Deposited 2024-01-29 Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count
Chain B 34–841（808 aa）
Chain D 34–841（808 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.92 Å
8VUL Human GluN1-2A with Fab 003-102 Local refinement of ATD Deposited 2024-01-29 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain B 34–399（366 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.83 Å
8VUN Human GluN1-2A With Fab 008-218 Deposited 2024-01-29 Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count
Chain B 34–841（808 aa）
Chain D 34–841（808 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.01 Å
8VUQ Human GluN1-2A with Fab 008-218 Local refinement of ATD Deposited 2024-01-29 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain B 34–396（363 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.85 Å
8VUR Human GluN1-2A with IgG 003-102 WT conformation Deposited 2024-01-29 Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain B 34–841（808 aa）
Chain D 34–841（808 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.84 Å
8VUT Human GluN1-2A with IgG 008-218 Deposited 2024-01-29 Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count
Chain B 34–841（808 aa）
Chain D 34–841（808 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
9MUL Crystal structure of GluN1/GluN2A ligand-binding domain in complex with Compound 1, Glycine and Glutamate Deposited 2025-01-14 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 401–539（139 aa）
Chain B 661–802（142 aa）
Not recorded GLY GLYCINE × 1 GLU GLUTAMIC ACID × 1 A1BRA 5-[(3-chlorobenzene-1-sulfonyl)methoxy]-6-methyl-N-[(pyridin-3-yl)methyl]pyrazine-2-carboxamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；0.1M Hepes pH 7.0, 0.2M ammonium acetate, 20% PEG-3350
Resolution 2.40 Å R-free 0.252
9MUM Crystal structure of GluN1/GluN2A ligand-binding domain in complex with Compound 11, Glycine and Glutamate Deposited 2025-01-14 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 401–539（139 aa）
Chain B 661–802（142 aa）
Not recorded GLY GLYCINE × 1 GLU GLUTAMIC ACID × 1 A1BRB 5-[2-(3-chlorophenyl)-2,2-difluoroethoxy]-N-[1-(pyrazin-2-yl)cyclopropyl]pyrazine-2-carboxamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；0.1M Hepes pH 7.0, 0.2M ammonium acetate, 20% PEG-3350
Resolution 1.97 Å R-free 0.241
9PQI NMR Structure of Ca2+/Calmodulin bound to the GluN2A C0 domain of the NMDA receptor Deposited 2025-07-22 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 1–1464（1464 aa）
Not recorded CA CALCIUM ION × 2 SOLUTION NMR
NMR measurement conditions pH 7；308 K；Ionic strength (raw mmCIF value) 1；Pressure 1
NMR sample composition 400 uM [U-100% 13C; U-100% 15N] Calmodulin, 1 mM GluN2, 1 mM Calcium chloride, 20 mM [U-99% 2H] TRIS, 93 % H2O, 7 % [U-2H] D2O, 93% H2O/7% D2O | 93% H2O/7% D2O
NMR sample composition 400 uM [U-100% 13C; U-100% 15N] Calmodulin, 1 mM GluN2, 1 mM Calcium chloride, 20 mM [U-99% 2H] TRIS, 100 % [U-2H] D2O, 100% D2O | 100% D2O
Resolution not provided

This page presents structural evidence recorded in PDB/mmCIF.“No recorded non-water small molecule” does not prove that the experimental sample was ligand-free; experimental conditions belong to the PDB experiment, while ligands and copy counts are shown for each biological assembly.