SMTL ID : 6tqf.1

The structure of ABC transporter Rv1819c in AMP-PNP bound state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

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

LMT.1: 7 residues within 4Å: Chain A: W.12, S.13, F.16, M.123, G.126, M.131, L.134 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.16, A:L.134 LMT.2: 8 residues within 4Å: Chain A: W.22, K.25, C.33, I.222, I.223, I.226, S.227, A.230 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.222, A:I.223, A:I.226 Hydrogen bonds: A:I.226 Salt bridges: A:K.25 LMT.3: 6 residues within 4Å: Chain A: V.60, G.61, S.64, V.65, W.68 Ligands: LMT.4 No protein-ligand interaction detected (PLIP) LMT.4: 8 residues within 4Å: Chain A: L.38, R.42, W.52, V.60, T.213, L.215, F.216 Ligands: LMT.3 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.38, A:T.213, A:L.215, A:F.216 Hydrogen bonds: A:R.42 LMT.5: 7 residues within 4Å: Chain A: F.51, L.214, F.266, F.384, Y.388, F.391, R.395 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.51, A:F.391 Hydrogen bonds: A:Y.388, A:Y.388, A:R.395 LMT.8: 7 residues within 4Å: Chain B: W.12, S.13, F.16, M.123, G.126, M.131, L.134 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:F.16, B:L.134 LMT.9: 8 residues within 4Å: Chain B: W.22, K.25, C.33, I.222, I.223, I.226, S.227, A.230 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:I.222, B:I.223, B:I.226 Hydrogen bonds: B:I.226 Salt bridges: B:K.25 LMT.10: 6 residues within 4Å: Chain B: V.60, G.61, S.64, V.65, W.68 Ligands: LMT.11 No protein-ligand interaction detected (PLIP) LMT.11: 8 residues within 4Å: Chain B: L.38, R.42, W.52, V.60, T.213, L.215, F.216 Ligands: LMT.10 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.38, B:T.213, B:L.215, B:F.216 Hydrogen bonds: B:R.42 LMT.12: 7 residues within 4Å: Chain B: F.51, L.214, F.266, F.384, Y.388, F.391, R.395 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:F.51, B:F.391 Hydrogen bonds: B:Y.388, B:Y.388, B:R.395

2 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 3 residues within 4Å: Chain A: T.467, Q.498 Ligands: ANP.7 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.467 MG.13: 3 residues within 4Å: Chain B: T.467, Q.498 Ligands: ANP.14 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.467

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.7: 17 residues within 4Å: Chain A: S.462, G.463, A.464, G.465, K.466, T.467, T.468, R.471, W.477, Q.498, H.607 Chain B: V.550, S.552, G.554, E.555, A.580 Ligands: MG.6 12 PLIP interactions: 10 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.462, A:G.463, A:A.464, A:G.465, A:K.466, A:T.467, A:T.467, A:T.468, A:R.471, A:Q.498, B:S.552, B:E.555 ANP.14: 17 residues within 4Å: Chain A: V.550, S.552, G.554, E.555, A.580 Chain B: S.462, G.463, A.464, G.465, K.466, T.467, T.468, R.471, W.477, Q.498, H.607 Ligands: MG.13 12 PLIP interactions: 10 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.462, B:G.463, B:A.464, B:G.465, B:K.466, B:T.467, B:T.467, B:T.468, B:R.471, B:Q.498, A:S.552, A:E.555

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rempel, S. et al., A mycobacterial ABC transporter mediates the uptake of hydrophilic compounds. Nature (2020)

Release Date

2020-04-01

Peptides

ABC transporter ATP-binding protein/permease: 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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ABC transporter ATP-binding protein/permease

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