SMTL ID : 3qem.1 (1 other biounit)

Crystal structure of amino terminal domains of the NMDA receptor subunit GluN1 and GluN2B in complex with Ro 25-6981

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 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: 3 residues within 4Å: Chain A: Q.349, 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: 4 residues within 4Å: Chain A: N.275, S.277, A.278, V.333 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.275, A:A.278 NAG.4: 1 residues within 4Å: Chain B: N.44 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.44 NAG.5: 1 residues within 4Å: Chain B: N.311 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:N.311 Hydrogen bonds: B:N.311

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

NA.3: 4 residues within 4Å: Chain A: Y.106, H.112, F.115, D.342 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.112

1 x QEM: 4-[(1R,2S)-3-(4-benzylpiperidin-1-yl)-1-hydroxy-2-methylpropyl]phenol(Non-covalent)

QEM.6: 17 residues within 4Å: Chain A: Y.87, T.88, R.93, K.109, S.110, I.111, L.113 Chain B: P.48, A.77, Q.80, I.81, F.84, T.144, Y.145, F.146, P.147, E.206 14 PLIP interactions: 9 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:P.48, B:A.77, B:Q.80, B:I.81, B:F.84, B:P.147, A:Y.87, A:Y.87, A:L.113 Hydrogen bonds: B:T.144, B:Y.145, A:I.111, A:L.113 pi-Stacking: B:F.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Karakas, E. et al., Subunit arrangement and phenylethanolamine binding in GluN1/GluN2B NMDA receptors. Nature (2011)

Release Date

2011-06-15

Peptides

NMDA glutamate receptor subunit: A
Glutamate [NMDA] receptor subunit epsilon-2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

NMDA glutamate receptor subunit

Glutamate [NMDA] receptor subunit epsilon-2

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