SMTL ID : 7f56.1

DNQX-bound GluK2-1xNeto2 complex, with asymmetric LBD

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-1-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 B: R.158, N.378, T.380, N.381, L.383, T.385 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.158 NAG-NAG-BMA.2: 5 residues within 4Å: Chain A: E.250, Y.251, Y.252, H.253, N.275 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.3: 4 residues within 4Å: Chain A: R.158, N.378, T.380, T.385 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.158, A:R.158 NAG-NAG-BMA.4: 4 residues within 4Å: Chain D: R.158, N.378, T.385 Chain E: S.97 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain E Hydrogen bonds: D:R.158, D:R.158, E:S.97

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

NAG.5: 3 residues within 4Å: Chain A: E.396, S.429, N.430 Ligand excluded by PLIP NAG.6: 2 residues within 4Å: Chain A: P.545, N.546 Ligand excluded by PLIP NAG.7: 1 residues within 4Å: Chain A: N.412 Ligand excluded by PLIP NAG.8: 5 residues within 4Å: Chain B: R.543, N.749, C.750, N.751 Ligands: NAG.9 Ligand excluded by PLIP NAG.9: 4 residues within 4Å: Chain B: P.545, N.546, T.548 Ligands: NAG.8 Ligand excluded by PLIP NAG.10: 6 residues within 4Å: Chain B: E.250, G.273, V.274, N.275, L.394, K.395 Ligand excluded by PLIP NAG.11: 4 residues within 4Å: Chain B: N.412, M.413, T.414, Q.417 Ligand excluded by PLIP NAG.12: 4 residues within 4Å: Chain C: N.749, C.750, N.751 Ligands: NAG.13 Ligand excluded by PLIP NAG.13: 3 residues within 4Å: Chain C: N.546, T.548 Ligands: NAG.12 Ligand excluded by PLIP NAG.14: 4 residues within 4Å: Chain C: E.250, G.273, V.274, N.275 Ligand excluded by PLIP NAG.15: 3 residues within 4Å: Chain C: N.378, T.380, T.385 Ligand excluded by PLIP NAG.16: 3 residues within 4Å: Chain C: N.412, M.413, T.414 Ligand excluded by PLIP NAG.17: 5 residues within 4Å: Chain D: R.543, L.729, N.749, N.751, L.752 Ligand excluded by PLIP NAG.18: 2 residues within 4Å: Chain D: R.543, N.546 Ligand excluded by PLIP NAG.19: 4 residues within 4Å: Chain D: E.250, G.273, V.274, N.275 Ligand excluded by PLIP NAG.20: 1 residues within 4Å: Chain D: N.412 Ligand excluded by PLIP

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: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

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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