SMTL ID : 7vr7.1

Inward-facing structure of human EAAT2 in the WAY213613-bound state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 2.80 Å

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: 18 residues within 4Å: Chain A: A.362, S.363, S.364, M.398, T.401, Y.404, A.439, G.446, L.447, M.450, I.464, L.467, V.468, D.471, D.475, R.478, T.479, N.482 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:T.401, A:Y.404, A:A.439, A:L.447, A:V.468 Hydrogen bonds: A:S.364, A:T.401, A:D.475, A:R.478, A:N.482 pi-Cation interactions: A:R.478 Halogen bonds: A:I.464 GJ0.7: 18 residues within 4Å: Chain B: A.362, S.363, S.364, M.398, T.401, Y.404, A.439, G.446, L.447, M.450, I.464, L.467, V.468, D.471, D.475, R.478, T.479, N.482 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:T.401, B:Y.404, B:A.439, B:L.447, B:V.468 Hydrogen bonds: B:S.364, B:T.401, B:D.475, B:R.478, B:N.482 pi-Cation interactions: B:R.478 Halogen bonds: B:I.464 GJ0.13: 18 residues within 4Å: Chain C: A.362, S.363, S.364, M.398, T.401, Y.404, A.439, G.446, L.447, M.450, I.464, L.467, V.468, D.471, D.475, R.478, T.479, N.482 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:T.401, C:Y.404, C:A.439, C:L.447, C:V.468 Hydrogen bonds: C:S.364, C:T.401, C:D.475, C:R.478, C:N.482 pi-Cation interactions: C:R.478 Halogen bonds: C:I.464

3 x 9Z9: (3beta,14beta,17beta,25R)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en(Non-covalent)

9Z9.2: 17 residues within 4Å: Chain A: L.96, I.97, S.100, L.101, G.104, L.108, D.109, M.121, V.392, I.396, L.434, V.437, G.438, S.441, I.442, T.449, L.452 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.96, A:L.101, A:L.101, A:V.392, A:I.396, A:L.434, A:V.437, A:V.437, A:T.449, A:L.452 9Z9.8: 17 residues within 4Å: Chain B: L.96, I.97, S.100, L.101, G.104, L.108, D.109, M.121, V.392, I.396, L.434, V.437, G.438, S.441, I.442, T.449, L.452 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:L.96, B:L.101, B:L.101, B:V.392, B:I.396, B:L.434, B:V.437, B:V.437, B:T.449, B:L.452 9Z9.14: 17 residues within 4Å: Chain C: L.96, I.97, S.100, L.101, G.104, L.108, D.109, M.121, V.392, I.396, L.434, V.437, G.438, S.441, I.442, T.449, L.452 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:L.96, C:L.101, C:L.101, C:V.392, C:I.396, C:L.434, C:V.437, C:V.437, C:T.449, C:L.452

6 x CLR: CHOLESTEROL(Non-covalent)

CLR.3: 5 residues within 4Å: Chain A: L.45, L.49, W.286, L.290 Ligands: PC1.6 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.45, A:L.49, A:W.286, A:W.286, A:W.286, A:W.286, A:L.290 CLR.4: 7 residues within 4Å: Chain A: I.325, F.345, F.348, W.355, M.477, S.480, V.481 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.325, A:F.345, A:F.348, A:F.348, A:W.355, A:V.481 Hydrogen bonds: A:S.480 CLR.9: 5 residues within 4Å: Chain B: L.45, L.49, W.286, L.290 Ligands: PC1.12 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:L.45, B:L.49, B:W.286, B:W.286, B:W.286, B:W.286, B:L.290 CLR.10: 7 residues within 4Å: Chain B: I.325, F.345, F.348, W.355, M.477, S.480, V.481 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:I.325, B:F.345, B:F.348, B:F.348, B:W.355, B:V.481 Hydrogen bonds: B:S.480 CLR.15: 5 residues within 4Å: Chain C: L.45, L.49, W.286, L.290 Ligands: PC1.18 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:L.45, C:L.49, C:W.286, C:W.286, C:W.286, C:W.286, C:L.290 CLR.16: 7 residues within 4Å: Chain C: I.325, F.345, F.348, W.355, M.477, S.480, V.481 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:I.325, C:F.345, C:F.348, C:F.348, C:W.355, C:V.481 Hydrogen bonds: C:S.480

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

PC1.5: 4 residues within 4Å: Chain A: V.133, I.137, I.425, L.430 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.133, A:I.137, A:I.425, A:L.430 PC1.6: 16 residues within 4Å: Chain A: L.77, F.80, P.81, I.84, M.88, M.91, M.283, I.284, W.286, Y.287 Chain B: F.176, G.247, F.248, A.251, I.254 Ligands: CLR.3 13 PLIP interactions: 9 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:L.77, A:F.80, A:P.81, A:P.81, A:I.84, A:I.84, A:I.284, A:I.284, A:Y.287, B:F.176, B:F.176, B:A.251, B:I.254 PC1.11: 4 residues within 4Å: Chain B: V.133, I.137, I.425, L.430 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:V.133, B:I.137, B:I.425, B:L.430 PC1.12: 16 residues within 4Å: Chain B: L.77, F.80, P.81, I.84, M.88, M.91, M.283, I.284, W.286, Y.287 Chain C: F.176, G.247, F.248, A.251, I.254 Ligands: CLR.9 13 PLIP interactions: 4 interactions with chain C, 9 interactions with chain B Hydrophobic interactions: C:F.176, C:F.176, C:A.251, C:I.254, B:L.77, B:F.80, B:P.81, B:P.81, B:I.84, B:I.84, B:I.284, B:I.284, B:Y.287 PC1.17: 4 residues within 4Å: Chain C: V.133, I.137, I.425, L.430 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:V.133, C:I.137, C:I.425, C:L.430 PC1.18: 16 residues within 4Å: Chain A: F.176, G.247, F.248, A.251, I.254 Chain C: L.77, F.80, P.81, I.84, M.88, M.91, M.283, I.284, W.286, Y.287 Ligands: CLR.15 13 PLIP interactions: 9 interactions with chain C, 4 interactions with chain A Hydrophobic interactions: C:L.77, C:F.80, C:P.81, C:P.81, C:I.84, C:I.84, C:I.284, C:I.284, C:Y.287, A:F.176, A:F.176, A:A.251, A:I.254

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kato, T. et al., Structural insights into inhibitory mechanism of human excitatory amino acid transporter EAAT2. Nat Commun (2022)

Release Date

2022-08-10

Peptides

Excitatory amino acid transporter 2: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Membrane

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

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