Nonactive state of Gly-,Glu- bound GluN1a-2B-2D NMDAR
Resolution: 3.34 Å
EM Method: Single-particle
Fitted PDBs: 9d37
Q-score: 0.443
Kang H, Epstein M, Banke TG, Perszyk R, Simorowski N, Paladugu S, Liotta DC, Traynelis SF, Furukawa H
Neuron (2025) [ DOI: doi:10.1016/j.neuron.2025.01.013 ]
- Glutamic acid (147 Da, Ligand)
- Tri-heteromeric glun1-2b-2d nmdar (377 kDa, Complex from Homo sapiens)
- Glutamate receptor ionotropic, nmda 2d (94 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 1 (92 kDa, Protein from Homo sapiens)
- Glycine (75 Da, Ligand)
- Glutamate receptor ionotropic, nmda 2b (98 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Water (18 Da, Ligand)
Open state of Gly-,Glu-,EU1622-240 bound GluN1a-2B-2D NMDAR
Resolution: 3.95 Å
EM Method: Single-particle
Fitted PDBs: 9d38
Q-score: 0.323
Kang H, Epstein M, Banke TG, Perszyk R, Simorowski N, Paladugu S, Liotta DC, Traynelis SF, Furukawa H
Neuron (2025) [ DOI: doi:10.1016/j.neuron.2025.01.013 ]
- Glutamic acid (147 Da, Ligand)
- Tri-heteromeric glun1-2b-2d nmdar (377 kDa, Complex from Homo sapiens)
- Glutamate receptor ionotropic, nmda 2d (94 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 1 (92 kDa, Protein from Homo sapiens)
- Glycine (75 Da, Ligand)
- Glutamate receptor ionotropic, nmda 2b (98 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Gly-,PPDA- bound GluN1a-2B-2D NMDAR
Resolution: 3.65 Å
EM Method: Single-particle
Fitted PDBs: 9d39
Q-score: 0.385
Kang H, Epstein M, Banke TG, Perszyk R, Simorowski N, Paladugu S, Liotta DC, Traynelis SF, Furukawa H
Neuron (2025) [ DOI: doi:10.1016/j.neuron.2025.01.013 ]
- Glutamate receptor ionotropic, nmda 2d (94 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 1 (92 kDa, Protein from Homo sapiens)
- Glycine (75 Da, Ligand)
- Glutamate receptor ionotropic, nmda 2b (98 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- (2s,3r)-1-(phenanthren-2-ylcarbonyl)piperazine-2,3-dicarboxylic acid (378 Da, Ligand)
- Tri-heteromeric glun1a-2b-2d nmdar (377 kDa, Complex from Homo sapiens)
Nonactive state of Gly-,Glu- bound GluN1a-2B-2D NMDAR (Low-res)
Resolution: 3.78 Å
EM Method: Single-particle
Fitted PDBs: 9d3a
Q-score: 0.368
Kang H, Epstein M, Banke TG, Perszyk R, Simorowski N, Paladugu S, Liotta DC, Traynelis SF, Furukawa H
Neuron (2025) [ DOI: doi:10.1016/j.neuron.2025.01.013 ]
- Glutamic acid (147 Da, Ligand)
- Tri-heteromeric glun1-2b-2d nmdar (377 kDa, Complex from Homo sapiens)
- Glutamate receptor ionotropic, nmda 2d (94 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 1 (92 kDa, Protein from Homo sapiens)
- Glycine (75 Da, Ligand)
- Glutamate receptor ionotropic, nmda 2b (98 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Gly-,Glu-,(S)-DQP-997-74 bound GluN1a-2B-2D NMDAR
Resolution: 3.71 Å
EM Method: Single-particle
Fitted PDBs: 9d3b
Q-score: 0.311
Kang H, Epstein M, Banke TG, Perszyk R, Simorowski N, Paladugu S, Liotta DC, Traynelis SF, Furukawa H
Neuron (2025) [ DOI: doi:10.1016/j.neuron.2025.01.013 ]
- Glutamic acid (147 Da, Ligand)
- Tri-heteromeric glun1-2b-2d nmdar (377 kDa, Complex from Homo sapiens)
- Glutamate receptor ionotropic, nmda 2d (94 kDa, Protein from Homo sapiens)
- 4-{(3r,5s)-5-(4-chlorophenyl)-3-[4-(4-chlorophenyl)-2-oxo-1,2-dihydroquinolin-3-yl]pyrazolidin-1-yl}-3,3-difluoro-4-oxobutanoic acid (572 Da, Ligand)
- Glutamate receptor ionotropic, nmda 1 (92 kDa, Protein from Homo sapiens)
- Glycine (75 Da, Ligand)
- Glutamate receptor ionotropic, nmda 2b (98 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Gly-,Glu-,(S)-(+)-ketamine bound GluN1a-2B-2D NMDAR
Resolution: 3.96 Å
EM Method: Single-particle
Fitted PDBs: 9d3c
Q-score: 0.353
Kang H, Epstein M, Banke TG, Perszyk R, Simorowski N, Paladugu S, Liotta DC, Traynelis SF, Furukawa H
Neuron (2025) [ DOI: doi:10.1016/j.neuron.2025.01.013 ]
- Glutamic acid (147 Da, Ligand)
- Tri-heteromeric glun1-2b-2d nmdar (377 kDa, Complex from Homo sapiens)
- Glutamate receptor ionotropic, nmda 2d (94 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 1 (92 kDa, Protein from Homo sapiens)
- (2~{s})-2-(2-chlorophenyl)-2-(methylamino)cyclohexan-1-one (237 Da, Ligand)
- Glycine (75 Da, Ligand)
- Glutamate receptor ionotropic, nmda 2b (98 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Human GluN1-2A IgG 003-102 splayed conformation
Resolution: 4.42 Å
EM Method: Single-particle
Fitted PDBs: 8vuh
Q-score: 0.204
Michalski K, Abdulla T, Kleeman S, Schmidl L, Gomez R, Simorowski N, Vallese F, Pruss H, Heckmann M, Geis C, Furukawa H
Nat Struct Mol Biol (2024) 31 pp. 1975-1986 [ Pubmed: 39227719 DOI: doi:10.1038/s41594-024-01386-4 ]
- 003-102 heavy (12 kDa, Protein from Homo sapiens)
- Human glun1-2a igg 003-102 splayed conformation (Complex from Homo sapiens)
- 003-102 light (11 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 1 (91 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 2a (90 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 1 (91 kDa, Protein from Homo sapiens)
Human GluN1-2A with Fab 003-102
Resolution: 3.92 Å
EM Method: Single-particle
Fitted PDBs: 8vuj
Q-score: 0.416
Michalski K, Abdulla T, Kleeman S, Schmidl L, Gomez R, Simorowski N, Vallese F, Pruss H, Heckmann M, Geis C, Furukawa H
Nat Struct Mol Biol (2024) 31 pp. 1975-1986 [ Pubmed: 39227719 DOI: doi:10.1038/s41594-024-01386-4 ]
- 003-102 heavy (12 kDa, Protein from Homo sapiens)
- 003-102 light (11 kDa, Protein from Homo sapiens)
- Human glun1-2a with fab 003-102 (Complex from Homo sapiens)
- Glutamate receptor ionotropic, nmda 1 (91 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 2a (90 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 1 (91 kDa, Protein from Homo sapiens)
Human GluN1-2A with Fab 003-102 Local refinement of ATD
Resolution: 3.83 Å
EM Method: Single-particle
Fitted PDBs: 8vul
Q-score: 0.47
Michalski K, Abdulla T, Kleeman S, Schmidl L, Gomez R, Simorowski N, Vallese F, Pruss H, Heckmann M, Geis C, Furukawa H
Nat Struct Mol Biol (2024) 31 pp. 1975-1986 [ Pubmed: 39227719 DOI: doi:10.1038/s41594-024-01386-4 ]
- Human glun1-2a with fab 003-102 local refinement of atd (Complex from Homo sapiens)
- Glutamate receptor ionotropic, nmda 1 (41 kDa, Protein from Homo sapiens)
- 003-102 heavy (12 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 2a (41 kDa, Protein from Homo sapiens)
- 003-102 light (11 kDa, Protein from Homo sapiens)
Human GluN1-2A With Fab 008-218
Resolution: 4.01 Å
EM Method: Single-particle
Fitted PDBs: 8vun
Q-score: 0.325
Michalski K, Abdulla T, Kleeman S, Schmidl L, Gomez R, Simorowski N, Vallese F, Pruss H, Heckmann M, Geis C, Furukawa H
Nat Struct Mol Biol (2024) 31 pp. 1975-1986 [ Pubmed: 39227719 DOI: doi:10.1038/s41594-024-01386-4 ]
- 008-218 light (22 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 2a (90 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 1 (91 kDa, Protein from Homo sapiens)
- Human glun1-2a with fab 008-218 (Complex from Homo sapiens)
- 008-218 heavy (23 kDa, Protein from Homo sapiens)