SMTL ID : 7vr8.1

Inward-facing structure of human EAAT2 in the substrate-free state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 3.58 Å

Oligo State

homo-trimer

Ligands

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

9Z9.1: 19 residues within 4Å: Chain A: L.96, I.97, S.100, L.101, G.104, L.105, L.108, D.109, I.246, F.388, V.392, L.434, V.437, G.438, S.441, I.442, V.448, T.449, L.452 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.96, A:L.101, A:L.101, A:L.105, A:L.108, A:I.246, A:V.437, A:I.442, A:V.448, A:T.449, A:L.452 9Z9.5: 19 residues within 4Å: Chain B: L.96, I.97, S.100, L.101, G.104, L.105, L.108, D.109, I.246, F.388, V.392, L.434, V.437, G.438, S.441, I.442, V.448, T.449, L.452 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:L.96, B:L.101, B:L.101, B:L.105, B:L.108, B:I.246, B:V.437, B:I.442, B:V.448, B:T.449, B:L.452 9Z9.9: 19 residues within 4Å: Chain C: L.96, I.97, S.100, L.101, G.104, L.105, L.108, D.109, I.246, F.388, V.392, L.434, V.437, G.438, S.441, I.442, V.448, T.449, L.452 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:L.96, C:L.101, C:L.101, C:L.105, C:L.108, C:I.246, C:V.437, C:I.442, C:V.448, C:T.449, C:L.452

3 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 6 residues within 4Å: Chain A: L.45, L.49, W.286, P.289, L.290 Ligands: PC1.4 9 PLIP interactions: 9 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:W.286, A:P.289, A:L.290 CLR.6: 6 residues within 4Å: Chain B: L.45, L.49, W.286, P.289, L.290 Ligands: PC1.8 9 PLIP interactions: 9 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:W.286, B:P.289, B:L.290 CLR.10: 6 residues within 4Å: Chain C: L.45, L.49, W.286, P.289, L.290 Ligands: PC1.12 9 PLIP interactions: 9 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:W.286, C:P.289, C:L.290

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

PC1.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PC1.4: 15 residues within 4Å: Chain A: F.80, P.81, I.84, M.88, M.91, L.280, M.283, I.284, W.286, Y.287 Chain B: F.176, G.247, A.251, I.254 Ligands: CLR.2 11 PLIP interactions: 7 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:F.80, A:P.81, A:I.84, A:L.280, A:M.283, A:I.284, A:Y.287, B:F.176, B:F.176, B:A.251, B:I.254 PC1.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PC1.8: 15 residues within 4Å: Chain B: F.80, P.81, I.84, M.88, M.91, L.280, M.283, I.284, W.286, Y.287 Chain C: F.176, G.247, A.251, I.254 Ligands: CLR.6 11 PLIP interactions: 7 interactions with chain B, 4 interactions with chain C Hydrophobic interactions: B:F.80, B:P.81, B:I.84, B:L.280, B:M.283, B:I.284, B:Y.287, C:F.176, C:F.176, C:A.251, C:I.254 PC1.11: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PC1.12: 15 residues within 4Å: Chain A: F.176, G.247, A.251, I.254 Chain C: F.80, P.81, I.84, M.88, M.91, L.280, M.283, I.284, W.286, Y.287 Ligands: CLR.10 11 PLIP interactions: 7 interactions with chain C, 4 interactions with chain A Hydrophobic interactions: C:F.80, C:P.81, C:I.84, C:L.280, C:M.283, 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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