SMTL ID : 6ajg.1

Crystal structure of mycolic acid transporter MmpL3 from Mycobacterium smegmatis complexed with SQ109

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

1 x 3RX: N-[(2E)-3,7-dimethylocta-2,6-dien-1-yl]-N'-[(1R,3S,5R,7R)-tricyclo[3.3.1.1~3,7~]dec-2-yl]ethane-1,2-diamine(Non-covalent)

3RX.1: 17 residues within 4Å: Chain A: I.262, I.266, D.269, Y.270, F.273, S.306, I.310, S.314, I.332, A.650, V.651, L.655, D.658, Y.659, F.662, A.695, L.699 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:I.262, A:I.266, A:Y.270, A:F.273, A:F.273, A:I.310, A:I.332, A:V.651, A:L.655, A:Y.659, A:F.662, A:F.662, A:A.695, A:L.699 Hydrogen bonds: A:D.658, A:D.658, A:D.658

9 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)

LMT.2: 17 residues within 4Å: Chain A: T.79, S.80, V.122, D.132, T.134, V.135, M.138, S.149, G.183, L.184, L.187, E.442, Q.455, F.458, F.465, R.466 Ligands: LMT.3 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.184, A:L.187, A:F.458 Hydrogen bonds: A:D.132, A:T.134, A:S.149, A:S.149 LMT.3: 19 residues within 4Å: Chain A: Q.53, F.56, D.77, S.80, L.184, L.191, T.192, I.195, H.252, F.253, F.254, I.440, R.466, T.467, E.468, T.562, E.566, L.711 Ligands: LMT.2 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:Q.53, A:F.56, A:L.191, A:T.192, A:I.195, A:F.253, A:F.254, A:I.440, A:I.440, A:L.711 Hydrogen bonds: A:D.77, A:S.80, A:S.80, A:R.466, A:R.466, A:E.468, A:E.566, A:E.566 LMT.4: 8 residues within 4Å: Chain A: L.435, S.436, L.437, Q.567, I.570, L.577, A.581, L.613 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.577, A:A.581, A:L.613 Hydrogen bonds: A:L.435, A:L.437, A:L.437, A:Q.567, A:Q.567 LMT.5: 7 residues within 4Å: Chain A: L.36, G.40, Y.43, G.237, I.241, E.247, F.248 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.43, A:I.241 LMT.6: 12 residues within 4Å: Chain A: L.38, I.45, G.48, T.192, G.193, I.195, G.196, G.232, A.236, L.239, F.253, Q.256 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.38, A:A.236 Hydrogen bonds: A:G.193, A:I.195, A:G.196, A:Q.256 LMT.7: 10 residues within 4Å: Chain A: Q.10, T.298, R.301, T.302, F.305, L.594, A.595, V.661, S.665, R.666 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Q.10, A:L.594 Hydrogen bonds: A:Q.10, A:T.302, A:L.594, A:A.595, A:S.665, A:S.665, A:R.666, A:K.756 Salt bridges: A:R.301 LMT.8: 8 residues within 4Å: Chain A: W.403, T.685, A.686, G.689, R.690, T.693, R.733, M.734 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.685, A:T.693 LMT.9: 6 residues within 4Å: Chain A: E.59, T.249, V.315, K.326, Y.330 Ligands: LMT.10 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.315 Hydrogen bonds: A:T.249 Salt bridges: A:K.326 LMT.10: 6 residues within 4Å: Chain A: I.241, V.245, T.249, Y.330, I.333 Ligands: LMT.9 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.241, A:V.245, A:Y.330, A:Y.330, A:I.333

2 x MHA: (CARBAMOYLMETHYL-CARBOXYMETHYL-AMINO)-ACETIC ACID(Non-covalent)

MHA.11: 8 residues within 4Å: Chain A: D.772, T.904, P.905, N.906, R.907, I.930, K.931, A.932 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.906, A:N.906, A:R.907, A:I.930, A:K.931, A:A.932 Salt bridges: A:R.907 MHA.12: 6 residues within 4Å: Chain A: G.875, F.876, T.877, N.878, S.879, N.894 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:T.877, A:N.878, A:N.878, A:S.879, A:S.879, A:S.879, A:N.894

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, B. et al., Crystal Structures of Membrane Transporter MmpL3, an Anti-TB Drug Target. Cell (2019)

Release Date

2018-12-26

Peptides

Drug exporters of the RND superfamily-like protein,Endolysin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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Drug exporters of the RND superfamily-like protein,Endolysin

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