SMTL ID : 6li9.1

Heteromeric amino acid transporter b0,+AT-rBAT complex bound with Arginine

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

10 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 1 residues within 4Å: Chain A: N.275 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 2 residues within 4Å: Chain A: N.346, T.348 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 1 residues within 4Å: Chain A: N.509 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 3 residues within 4Å: Chain A: N.527, D.553, V.554 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 4 residues within 4Å: Chain A: N.436, N.589, D.590, S.591 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 1 residues within 4Å: Chain C: N.275 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 2 residues within 4Å: Chain C: N.346, T.348 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 1 residues within 4Å: Chain C: N.509 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 3 residues within 4Å: Chain C: N.527, D.553, V.554 No protein-ligand interaction detected (PLIP) NAG-NAG.10: 4 residues within 4Å: Chain C: N.436, N.589, D.590, S.591 No protein-ligand interaction detected (PLIP)

2 x CA: CALCIUM ION(Non-covalent)

CA.11: 5 residues within 4Å: Chain A: N.228, D.298, F.332, L.333, E.335 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:F.332, A:L.333, A:E.335, H2O.2, H2O.2 CA.15: 5 residues within 4Å: Chain C: N.228, D.298, F.332, L.333, E.335 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:F.332, C:L.333, C:E.335, H2O.6, H2O.7

2 x ARG: ARGININE(Non-covalent)

ARG.12: 9 residues within 4Å: Chain B: I.63, G.65, S.66, G.67, W.250, A.251, D.253, Y.287, T.340 8 PLIP interactions: 8 interactions with chain B, Hydrophobic interactions: B:D.253 Hydrogen bonds: B:I.63, B:G.65, B:S.66, B:G.67, B:D.253, B:Y.287 Salt bridges: B:D.253 ARG.16: 9 residues within 4Å: Chain D: I.63, G.65, S.66, G.67, W.250, A.251, D.253, Y.287, T.340 8 PLIP interactions: 8 interactions with chain D, Hydrophobic interactions: D:D.253 Hydrogen bonds: D:I.63, D:G.65, D:S.66, D:G.67, D:D.253, D:Y.287 Salt bridges: D:D.253

4 x 3PH: 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE(Non-covalent)

3PH.13: 13 residues within 4Å: Chain A: R.100, L.103, F.104, T.107 Chain B: T.184, S.187, L.188, R.368, I.376, I.380, L.493, M.497 Ligands: 3PH.14 7 PLIP interactions: 3 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:R.100, A:L.103, A:L.103, B:I.376, B:I.376, B:I.380 Salt bridges: B:R.368 3PH.14: 19 residues within 4Å: Chain B: Y.130, W.134, H.356, M.357, L.358, K.359, L.361, P.373, I.376, F.377, I.381, Y.385, F.474, A.482, S.486, I.489, L.493, M.497 Ligands: 3PH.13 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:Y.130, B:W.134, B:L.358, B:L.361, B:I.376, B:F.377, B:F.377, B:F.377, B:I.381, B:Y.385, B:F.474, B:F.474, B:I.489 Hydrogen bonds: B:K.359, B:S.486 3PH.17: 13 residues within 4Å: Chain C: R.100, L.103, F.104, T.107 Chain D: T.184, S.187, L.188, R.368, I.376, I.380, L.493, M.497 Ligands: 3PH.18 7 PLIP interactions: 4 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:I.376, D:I.376, D:I.380, C:R.100, C:L.103, C:L.103 Salt bridges: D:R.368 3PH.18: 19 residues within 4Å: Chain D: Y.130, W.134, H.356, M.357, L.358, K.359, L.361, P.373, I.376, F.377, I.381, Y.385, F.474, A.482, S.486, I.489, L.493, M.497 Ligands: 3PH.17 15 PLIP interactions: 15 interactions with chain D Hydrophobic interactions: D:Y.130, D:W.134, D:L.358, D:L.361, D:I.376, D:F.377, D:F.377, D:F.377, D:I.381, D:Y.385, D:F.474, D:F.474, D:I.489 Hydrogen bonds: D:K.359, D:S.486

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yan, R. et al., Cryo-EM structure of the human heteromeric amino acid transporter b0,+AT-rBAT. Sci Adv (2020)

Release Date

2020-04-29

Peptides

Neutral and basic amino acid transport protein rBAT: AC
b(0,+)-type amino acid transporter 1: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Membrane

We predict this structure to be a membrane protein.
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Neutral and basic amino acid transport protein rBAT

b(0,+)-type amino acid transporter 1

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