SMTL ID : 5tpw.1

Crystal structure of amino terminal domains of the NMDA receptor subunit GluN1 and GluN2A in complex with zinc at the GluN2A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.91 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: K.273, N.274, S.276 Ligands: SO4.4 No protein-ligand interaction detected (PLIP) NAG.2: 2 residues within 4Å: Chain A: N.366 Ligands: SO4.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.366

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 2 residues within 4Å: Chain A: R.335 Ligands: NAG.2 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.335 SO4.4: 5 residues within 4Å: Chain A: H.15, N.274, E.275, S.276 Ligands: NAG.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.276, A:S.276 Salt bridges: A:H.15 SO4.5: 4 residues within 4Å: Chain A: G.198, T.199, K.200, N.201 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.198, A:K.200, A:N.201, A:N.201 SO4.9: 5 residues within 4Å: Chain B: P.145, G.146, Y.147, R.148, D.149 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.146, B:R.148, B:D.149, B:D.149, B:D.149 Salt bridges: B:R.148 SO4.10: 4 residues within 4Å: Chain B: R.211, P.240, S.241, R.337 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.241, B:R.337 Salt bridges: B:R.211 SO4.11: 3 residues within 4Å: Chain B: T.300, H.302, Q.303 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.300, B:Q.303

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 2 residues within 4Å: Chain A: T.12, K.13 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.13, A:K.13 GOL.7: 5 residues within 4Å: Chain A: H.123, K.156, N.339, E.340, K.345 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.123, A:K.156, A:E.340

1 x ZN: ZINC ION(Non-covalent)

ZN.8: 4 residues within 4Å: Chain B: H.11, H.95, E.233, D.249 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:H.11, B:H.95, B:E.233, B:D.249, B:D.249

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Romero-Hernandez, A. et al., Molecular Basis for Subtype Specificity and High-Affinity Zinc Inhibition in the GluN1-GluN2A NMDA Receptor Amino-Terminal Domain. Neuron (2016)

Release Date

2016-12-14

Peptides

NMDA glutamate receptor subunit: A
Glutamate receptor ionotropic, NMDA 2A: B
FAB, HEAVY CHAIN: C
FAB, LIGHT CHAIN: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
H

D
L

NMDA glutamate receptor subunit

Glutamate receptor ionotropic, NMDA 2A

FAB, HEAVY CHAIN

FAB, LIGHT CHAIN

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