SMTL ID : 6wu1.1

Structure of apo LaINDY

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

10 x HEX: HEXANE(Non-functional Binders)(Non-covalent)

HEX.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) HEX.2: 5 residues within 4Å: Chain A: L.348, I.351, T.352 Chain B: Y.37 Ligands: OCT.17 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.348, A:I.351 HEX.3: 3 residues within 4Å: Ligands: HEX.4, D10.7, OCT.9 No protein-ligand interaction detected (PLIP) HEX.4: 12 residues within 4Å: Chain A: F.69, F.72, V.73, I.76, V.77, Y.421, F.422, Y.468, W.488 Ligands: HEX.3, D10.7, OCT.9 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.73, A:I.76, A:F.422 HEX.13: 10 residues within 4Å: Chain A: I.142, L.147, G.148, V.151, V.191, P.194, V.195, A.315, F.318, C.319 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.151, A:F.318, A:F.318 HEX.14: 6 residues within 4Å: Chain A: L.324, L.327, F.331, I.333, L.336 Ligands: D10.11 No protein-ligand interaction detected (PLIP) HEX.16: 10 residues within 4Å: Chain B: I.142, L.147, G.148, V.151, V.191, P.194, V.195, A.315, F.318, C.319 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:V.151, B:F.318, B:F.318 HEX.22: 12 residues within 4Å: Chain B: F.72, V.73, I.76, V.77, I.80, Y.421, F.422, Y.468, W.488 Ligands: OCT.18, D10.21, HEX.24 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:I.76, B:W.488 HEX.23: 3 residues within 4Å: Chain B: L.348, I.351 Ligands: OCT.8 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:I.351 HEX.24: 3 residues within 4Å: Ligands: OCT.18, D10.21, HEX.22 No protein-ligand interaction detected (PLIP)

8 x D10: DECANE(Non-covalent)

D10.5: 7 residues within 4Å: Chain A: L.99 Chain B: L.324, I.333, Q.335, L.336, F.340, L.344 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Q.335, A:L.99 D10.6: 16 residues within 4Å: Chain A: F.40, P.43, L.44, G.47, I.48, W.51, I.71, A.74, T.75, G.78, T.89, L.92, G.93, V.96, V.100 Ligands: OCT.8 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.51, A:A.74 D10.7: 7 residues within 4Å: Chain A: W.42, V.46, V.77, I.80, T.81 Ligands: HEX.3, HEX.4 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.80 D10.11: 8 residues within 4Å: Chain A: L.324, I.333, Q.335, L.336, F.340, L.344 Chain B: L.99 Ligands: HEX.14 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:L.99, A:Q.335, A:Q.335 D10.12: 13 residues within 4Å: Chain A: G.406, L.409, V.410, I.413, L.414, L.450, L.454, L.496, M.499, V.500, G.503, I.504, T.507 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.410, A:L.454, A:M.499 D10.15: 13 residues within 4Å: Chain B: W.405, G.406, L.409, V.410, I.413, L.414, L.450, L.454, M.499, V.500, G.503, I.504, T.507 No protein-ligand interaction detected (PLIP) D10.20: 16 residues within 4Å: Chain B: F.40, P.43, L.44, G.47, I.48, W.51, I.71, A.74, T.75, G.78, T.89, L.92, G.93, V.96, V.100 Ligands: OCT.17 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:W.51, B:A.74 D10.21: 8 residues within 4Å: Chain B: W.42, V.46, V.73, V.77, I.80, T.81 Ligands: HEX.22, HEX.24 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:V.77

6 x OCT: N-OCTANE(Non-covalent)(Non-functional Binders)

OCT.8: 8 residues within 4Å: Chain A: Y.37, F.40, L.44, L.92, V.96 Chain B: I.351 Ligands: D10.6, HEX.23 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:I.351, A:V.96 OCT.9: 7 residues within 4Å: Chain A: Y.418, Y.421, W.488, K.489, F.492 Ligands: HEX.3, HEX.4 No protein-ligand interaction detected (PLIP) OCT.10: 8 residues within 4Å: Chain A: P.58, W.66, F.69, F.388, W.391, F.392, F.395, F.422 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.391, A:W.391 OCT.17: 8 residues within 4Å: Chain A: I.351 Chain B: Y.37, F.40, L.44, L.92, V.96 Ligands: HEX.2, D10.20 No protein-ligand interaction detected (PLIP) OCT.18: 8 residues within 4Å: Chain B: Y.418, Y.421, F.422, W.488, K.489, F.492 Ligands: HEX.22, HEX.24 No protein-ligand interaction detected (PLIP) OCT.19: 7 residues within 4Å: Chain B: P.58, W.66, F.69, F.388, W.391, F.392, F.395 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:P.58, B:W.391

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sauer, D.B. et al., Structural basis for the reaction cycle of DASS dicarboxylate transporters. Elife (2020)

Release Date

2020-09-16

Peptides

DASS family sodium-coupled anion symporter: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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DASS family sodium-coupled anion symporter

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