SMTL ID : 5oqt.1

Crystal structure of a bacterial cationic amino acid transporter (CAT) homologue

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.86 Å

Oligo State

hetero-1-1-mer

Ligands

13 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)

OLC.1: 14 residues within 4Å: Chain A: L.196, L.199, A.200, V.203, W.204, Y.205, V.206, K.207, W.211, A.270, V.274 Ligands: OLC.2, OLC.12, CLR.16 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.199, A:A.200, A:W.211, A:A.270, A:V.274 Hydrogen bonds: A:K.207, A:K.207 OLC.2: 2 residues within 4Å: Chain A: W.204 Ligands: OLC.1 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.204, A:W.204 OLC.3: 8 residues within 4Å: Chain A: M.34, V.192, I.255, V.259, V.263, L.267 Chain B: F.8 Ligands: OLC.12 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:V.192, A:V.259, A:V.263, A:L.267, B:F.8 Water bridges: A:R.251 OLC.4: 7 residues within 4Å: Chain A: A.177, K.179, T.241, V.320, Y.323 Ligands: OLC.9, OLC.11 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.177 Hydrogen bonds: A:K.179, A:K.179 OLC.5: 2 residues within 4Å: Chain A: L.63, F.214 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.214, A:F.214 OLC.6: 16 residues within 4Å: Chain A: L.114, F.329, S.333, P.339, V.341, Y.353, V.354, N.355, L.358, T.359, A.362, F.366, L.378, G.438, W.442 Ligands: OLC.8 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.114, A:L.358, A:T.359, A:F.366, A:F.366, A:L.378, A:W.442 Hydrogen bonds: A:S.333, A:S.333 OLC.7: 9 residues within 4Å: Chain A: S.220, T.224, L.429, Q.430, L.431, P.432, A.433, W.436 Ligands: OLC.10 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.433, A:W.436 OLC.8: 7 residues within 4Å: Chain A: W.110, Q.325, F.329, L.338, F.366, W.442 Ligands: OLC.6 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.110, A:F.329, A:F.329, A:L.338, A:F.366, A:W.442 OLC.9: 10 residues within 4Å: Chain A: L.35, K.179, S.180, F.183, N.184, I.187, T.315, T.316, L.319 Ligands: OLC.4 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.183, A:F.183, A:I.187, A:T.315, A:T.316 Hydrogen bonds: A:S.180, A:S.180 Water bridges: A:N.184 OLC.10: 2 residues within 4Å: Chain A: A.433 Ligands: OLC.7 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.433 OLC.11: 2 residues within 4Å: Chain A: L.175 Ligands: OLC.4 No protein-ligand interaction detected (PLIP) OLC.12: 7 residues within 4Å: Chain A: L.266, L.267 Chain B: F.8, M.9, L.12 Ligands: OLC.1, OLC.3 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:L.266, A:L.267, B:F.8, B:L.12 OLC.17: 4 residues within 4Å: Chain B: N.6, M.9, A.10, G.13 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:M.9 Hydrogen bonds: B:N.6

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.13: 2 residues within 4Å: Chain A: E.55, H.56 3 PLIP interactions: 3 interactions with chain A Water bridges: A:H.56, A:E.377 Salt bridges: A:H.56

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.14: 2 residues within 4Å: Chain A: H.298 Chain B: H.27 Ligand excluded by PLIP

1 x ALA: ALANINE(Non-covalent)

ALA.15: 9 residues within 4Å: Chain A: A.39, I.40, G.42, T.43, G.44, F.231, A.232, I.234, V.317 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.231 Hydrogen bonds: A:G.42, A:G.44, A:I.234 Water bridges: A:I.45

1 x CLR: CHOLESTEROL(Non-covalent)

CLR.16: 8 residues within 4Å: Chain A: A.200, V.201, W.204, Y.205 Chain B: F.20, A.23, Y.24 Ligands: OLC.1 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.20, B:F.20, B:F.20, B:A.23, A:V.201

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jungnickel, K.E.J. et al., Structural basis for amino acid transport by the CAT family of SLC7 transporters. Nat Commun (2018)

Release Date

2018-02-14

Peptides

Amino acid transporter: A
Uncharacterized protein YneM: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Membrane

We predict this structure to be a membrane protein.
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Amino acid transporter

Uncharacterized protein YneM