SMTL ID : 7xr6.1

Structure of human excitatory amino acid transporter 2 (EAAT2) in complex with WAY-213613

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

Ligands

3 x GJ0: (2S)-2-azanyl-4-[[4-[2-bromanyl-4,5-bis(fluoranyl)phenoxy]phenyl]amino]-4-oxidanylidene-butanoic acid(Non-covalent)

GJ0.1: 20 residues within 4Å: Chain A: A.362, S.363, S.364, M.398, T.401, Y.404, A.439, A.440, G.446, L.447, M.450, I.464, L.467, V.468, D.471, D.475, R.478, T.479, N.482 Ligands: XKJ.12 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:T.401, A:V.468 Hydrogen bonds: A:S.364, A:D.475, A:R.478 pi-Cation interactions: A:R.478 Halogen bonds: A:I.464 GJ0.14: 20 residues within 4Å: Chain B: A.362, S.363, S.364, M.398, T.401, Y.404, A.439, A.440, G.446, L.447, M.450, I.464, L.467, V.468, D.471, D.475, R.478, T.479, N.482 Ligands: XKJ.25 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:V.468 Hydrogen bonds: B:S.364, B:T.401, B:D.475, B:R.478 pi-Cation interactions: B:R.478 GJ0.28: 20 residues within 4Å: Chain C: A.362, S.363, S.364, M.398, T.401, Y.404, A.439, A.440, G.446, L.447, M.450, I.464, L.467, V.468, D.471, D.475, R.478, T.479, N.482 Ligands: XKJ.39 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:V.468 Hydrogen bonds: C:S.364, C:D.475, C:R.478 pi-Cation interactions: C:R.478

3 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.2: 11 residues within 4Å: Chain A: R.115, T.118, R.119, V.122, Y.123, S.126, I.130, I.335, V.339, L.496 Ligands: PC1.3 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:R.115, A:R.119, A:Y.123, A:I.335, A:I.335, A:V.339, A:L.496 Salt bridges: A:R.119 Y01.15: 10 residues within 4Å: Chain B: R.115, T.118, R.119, V.122, Y.123, S.126, I.130, I.335, L.496 Ligands: PC1.16 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:R.119, B:Y.123, B:I.335, B:I.335, B:L.496 Salt bridges: B:R.119 Y01.29: 10 residues within 4Å: Chain C: R.115, T.118, R.119, V.122, Y.123, S.126, I.130, I.335, L.496 Ligands: PC1.30 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:R.119, C:Y.123, C:I.335, C:I.335, C:L.496 Salt bridges: C:R.119

30 x PC1: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)(Non-functional Binders)

PC1.3: 2 residues within 4Å: Chain A: V.122 Ligands: Y01.2 Ligand excluded by PLIP PC1.4: 3 residues within 4Å: Chain A: K.111, M.121, V.122 Ligand excluded by PLIP PC1.5: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP PC1.6: 5 residues within 4Å: Chain A: V.133, L.140, I.425, V.426, S.429 Ligand excluded by PLIP PC1.7: 7 residues within 4Å: Chain A: L.243, I.246, G.247, A.251, K.258 Chain B: M.283 Ligands: PC1.13 Ligand excluded by PLIP PC1.8: 9 residues within 4Å: Chain A: L.96, I.97, S.100, L.101, L.108, L.434, V.437, S.441, T.449 Ligand excluded by PLIP PC1.9: 4 residues within 4Å: Chain A: L.324, F.348, W.355, M.477 Ligand excluded by PLIP PC1.10: 3 residues within 4Å: Chain A: K.40, L.41, N.44 Ligand excluded by PLIP PC1.11: 1 residues within 4Å: Chain A: L.47 Ligand excluded by PLIP PC1.13: 9 residues within 4Å: Chain A: L.175, F.176, A.251 Chain B: M.88, M.91, M.283, I.284, W.286 Ligands: PC1.7 Ligand excluded by PLIP PC1.16: 3 residues within 4Å: Chain B: V.122, S.126 Ligands: Y01.15 Ligand excluded by PLIP PC1.17: 4 residues within 4Å: Chain B: K.111, T.118, M.121, V.122 Ligand excluded by PLIP PC1.18: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP PC1.19: 4 residues within 4Å: Chain B: V.133, L.140, I.425, V.426 Ligand excluded by PLIP PC1.20: 6 residues within 4Å: Chain B: L.243, I.246, G.247, I.254 Chain C: M.283 Ligands: PC1.26 Ligand excluded by PLIP PC1.21: 9 residues within 4Å: Chain B: L.96, S.100, L.101, L.108, N.274, L.434, V.437, S.441, T.449 Ligand excluded by PLIP PC1.22: 4 residues within 4Å: Chain B: L.324, F.348, W.355, M.477 Ligand excluded by PLIP PC1.23: 2 residues within 4Å: Chain B: K.40, K.43 Ligand excluded by PLIP PC1.24: 1 residues within 4Å: Chain B: L.47 Ligand excluded by PLIP PC1.26: 9 residues within 4Å: Chain B: L.175, F.176, A.251 Chain C: M.88, M.91, M.283, I.284, W.286 Ligands: PC1.20 Ligand excluded by PLIP PC1.27: 8 residues within 4Å: Chain A: M.88, M.91, M.283, I.284, W.286 Chain C: F.176, A.251 Ligands: PC1.34 Ligand excluded by PLIP PC1.30: 3 residues within 4Å: Chain C: V.122, S.126 Ligands: Y01.29 Ligand excluded by PLIP PC1.31: 4 residues within 4Å: Chain C: K.111, T.118, M.121, V.122 Ligand excluded by PLIP PC1.32: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP PC1.33: 4 residues within 4Å: Chain C: V.133, L.140, I.425, S.429 Ligand excluded by PLIP PC1.34: 8 residues within 4Å: Chain A: M.283 Chain C: L.175, L.243, I.246, A.251, I.254, K.258 Ligands: PC1.27 Ligand excluded by PLIP PC1.35: 10 residues within 4Å: Chain C: L.96, I.97, S.100, L.108, N.274, L.434, V.437, S.441, T.449, L.452 Ligand excluded by PLIP PC1.36: 4 residues within 4Å: Chain C: L.324, F.348, W.355, M.477 Ligand excluded by PLIP PC1.37: 3 residues within 4Å: Chain C: K.40, L.41, N.44 Ligand excluded by PLIP PC1.38: 1 residues within 4Å: Chain C: L.47 Ligand excluded by PLIP

3 x XKJ: dodecyl beta-D-glucopyranoside(Non-covalent)

XKJ.12: 11 residues within 4Å: Chain A: L.47, T.50, V.51, V.54, I.55, V.468, A.469, D.471, W.472, D.475 Ligands: GJ0.1 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.55, A:W.472 Hydrogen bonds: A:D.475, A:D.475 XKJ.25: 11 residues within 4Å: Chain B: L.47, T.50, V.51, V.54, I.55, V.468, A.469, D.471, W.472, D.475 Ligands: GJ0.14 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:T.50, B:I.55, B:W.472 Hydrogen bonds: B:D.475, B:D.475 XKJ.39: 11 residues within 4Å: Chain C: L.47, T.50, V.51, V.54, I.55, V.468, A.469, D.471, W.472, D.475 Ligands: GJ0.28 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:T.50, C:I.55, C:W.472 Hydrogen bonds: C:D.475, C:D.475

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Z. et al., Structural basis of ligand binding modes of human EAAT2. Nat Commun (2022)

Release Date

2022-06-22

Peptides

Excitatory amino acid transporter 2: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Membrane

We predict this structure to be a membrane protein.
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Excitatory amino acid transporter 2

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