SMTL ID : 8g18.1 (1 other biounit)

Heterodimer of the GluN1b-GluN2B NMDA receptor amino-terminal domains bound to allosteric inhibitor 93-108

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.1: 2 residues within 4Å: Chain A: N.367, Y.370 No protein-ligand interaction detected (PLIP)

3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.2: 3 residues within 4Å: Chain A: N.275, S.277, A.278 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.278 NAG.4: 1 residues within 4Å: Chain B: N.43 No protein-ligand interaction detected (PLIP) NAG.5: 1 residues within 4Å: Chain B: N.310 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.310

1 x NA: SODIUM ION(Non-functional Binders)

NA.3: 3 residues within 4Å: Chain A: Y.106, F.115, D.342 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.115

1 x YGW: N-(4-{3-[4-(3,4-difluorophenyl)piperazin-1-yl]-2-oxopropoxy}phenyl)methanesulfonamide(Non-covalent)

YGW.6: 21 residues within 4Å: Chain A: Y.87, T.88, F.91, R.93, S.110, I.111, L.113 Chain B: P.47, I.51, Q.79, I.80, F.83, T.143, Y.144, F.145, P.146, L.174, D.175, M.176, S.177, E.205 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.83, B:F.145, A:Y.87, A:Y.87 Hydrogen bonds: B:Q.79, B:T.143, B:Y.144, B:M.176

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Harris, L.D. et al., Novel GluN2B-Selective NMDA Receptor Negative Allosteric Modulator Possesses Intrinsic Analgesic Properties and Enhances Analgesia of Morphine in a Rodent Tail Flick Pain Model. Acs Chem Neurosci (2023)

Release Date

2023-03-01

Peptides

Glutamate receptor ionotropic, NMDA 1: A
Glutamate receptor ionotropic, NMDA 2B: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glutamate receptor ionotropic, NMDA 1

Glutamate receptor ionotropic, NMDA 2B

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