SMTL ID : 4zjl.1 (1 other biounit)

Crystal structure of AcrB in complex with antibiotic in P21 space group

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.47 Å

Oligo State

homo-trimer

Ligands

1 x ERY: ERYTHROMYCIN A(Non-covalent)

ERY.1: 19 residues within 4Å: Chain A: S.79, N.81, S.134, S.135, F.136, K.292, M.573, M.575, F.615, F.617, A.618, E.673, D.681, E.683, E.826, L.828, T.860, G.861, M.862 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.615, A:F.617, A:F.617, A:F.617, A:E.673, A:M.862 Hydrogen bonds: A:K.292, A:M.862 Salt bridges: A:D.681, A:E.683, A:E.826

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

LMT.2: 8 residues within 4Å: Chain A: S.530, G.533, I.534, R.536, R.540, Y.541, V.1016, F.1020 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.1016, A:F.1020 Hydrogen bonds: A:S.530, A:R.536, A:R.536, A:S.537, A:S.537, A:R.540, A:Y.541 LMT.3: 15 residues within 4Å: Chain A: V.452, T.463, Y.467, F.556, S.561, S.562, G.870, A.873, Y.877, V.884, N.923, Q.928, L.931, L.932, I.935 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:V.452, A:F.556, A:F.556, A:V.884, A:L.931, A:L.931, A:L.932, A:I.935, A:I.935 Hydrogen bonds: A:Y.467, A:Y.467, A:S.561, A:Y.877, A:N.923 LMT.5: 11 residues within 4Å: Chain B: S.530, G.533, I.534, R.536, S.537, R.540, Y.541, L.976, V.1016, I.1019, F.1020 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:L.976, B:V.1016, B:V.1016, B:I.1019, B:F.1020, B:F.1020 Hydrogen bonds: B:S.530, B:S.530, B:R.536, B:R.536, B:R.536, B:S.537, B:S.537, B:R.540, B:R.540, B:Y.541 LMT.6: 8 residues within 4Å: Chain C: S.530, G.533, I.534, R.536, R.540, Y.541, V.1016, F.1020 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:V.1016, C:F.1020, C:F.1020 Hydrogen bonds: C:R.536, C:R.540, C:R.540

2 x NI: NICKEL (II) ION(Non-covalent)

NI.4: 2 residues within 4Å: Chain A: H.525, D.529 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.525, A:D.529, A:D.529 NI.7: 2 residues within 4Å: Chain C: H.525, D.529 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:H.525, C:D.529, C:D.529

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ababou, A. et al., Structures of Gate Loop Variants of the AcrB Drug Efflux Pump Bound by Erythromycin Substrate. Plos One (2016)

Release Date

2016-07-27

Peptides

Multidrug efflux pump subunit AcrB: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Membrane

We predict this structure to be a membrane protein.
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Multidrug efflux pump subunit AcrB

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