SMTL ID : 7f5a.1

DNQX-bound GluK2-2xNeto2 complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-2-mer

Ligands

4 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 6 residues within 4Å: Chain A: R.158, R.194, N.378, T.380, N.381, T.385 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.194 NAG-NAG-BMA.2: 6 residues within 4Å: Chain B: R.158, N.378, T.380, N.381, L.383, T.385 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.3: 4 residues within 4Å: Chain C: R.158, N.378, T.380, T.385 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:R.158 NAG-NAG-BMA.4: 4 residues within 4Å: Chain D: R.158, N.378, K.379, T.385 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:R.158

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

NAG.5: 4 residues within 4Å: Chain A: G.273, V.274, N.275, L.394 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.273, A:G.273, A:N.275 NAG.6: 2 residues within 4Å: Chain A: S.409, N.412 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.409 NAG.7: 4 residues within 4Å: Chain B: R.543, K.544, N.546 Ligands: NAG.8 No protein-ligand interaction detected (PLIP) NAG.8: 4 residues within 4Å: Chain B: N.749, C.750, N.751 Ligands: NAG.7 No protein-ligand interaction detected (PLIP) NAG.9: 5 residues within 4Å: Chain B: G.273, N.275, L.394, K.395, E.396 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.275, B:K.395, B:E.396 NAG.10: 4 residues within 4Å: Chain B: L.411, N.412, M.413, S.416 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.412, B:M.413 NAG.11: 7 residues within 4Å: Chain C: E.250, Y.252, H.253, G.273, V.274, N.275, P.421 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:H.253 Hydrogen bonds: C:N.275, C:N.275 NAG.12: 4 residues within 4Å: Chain D: N.275, L.394, K.395, E.396 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:N.275, D:K.395, D:E.396 NAG.13: 1 residues within 4Å: Chain D: N.412 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.412 NAG.14: 3 residues within 4Å: Chain D: N.749, C.750, N.751 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:C.750, D:N.751, D:N.751

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

He, L. et al., Kainate receptor modulation by NETO2. Nature (2021)

Release Date

2021-09-29

Peptides

Glutamate receptor ionotropic, kainate 2: ABCD
Neuropilin and tolloid-like protein 2: EF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Membrane

We predict this structure to be a membrane protein.
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Glutamate receptor ionotropic, kainate 2

Neuropilin and tolloid-like protein 2

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