SMTL ID : 6zoe.1

AcrB-F563A symmetric T protomer

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

hetero-3-3-mer

Ligands

3 x D10: DECANE(Non-covalent)

D10.1: 4 residues within 4Å: Chain A: S.530, G.533, R.536, Y.541 No protein-ligand interaction detected (PLIP) D10.7: 4 residues within 4Å: Chain C: S.530, G.533, R.536, Y.541 No protein-ligand interaction detected (PLIP) D10.13: 4 residues within 4Å: Chain E: S.530, G.533, R.536, Y.541 No protein-ligand interaction detected (PLIP)

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 1 residues within 4Å: Chain A: E.722 No protein-ligand interaction detected (PLIP) EDO.6: 1 residues within 4Å: Chain B: K.134 No protein-ligand interaction detected (PLIP) EDO.8: 1 residues within 4Å: Chain C: E.722 No protein-ligand interaction detected (PLIP) EDO.12: 1 residues within 4Å: Chain D: K.134 No protein-ligand interaction detected (PLIP) EDO.14: 1 residues within 4Å: Chain E: E.722 No protein-ligand interaction detected (PLIP) EDO.18: 1 residues within 4Å: Chain F: K.134 No protein-ligand interaction detected (PLIP)

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

LMT.3: 13 residues within 4Å: Chain A: I.27, L.28, N.298, L.300, D.301, A.304, K.334, I.337, V.341, P.373, L.376, F.380, M.395 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:I.27, A:I.337, A:V.341, A:P.373, A:L.376, A:F.380 Hydrogen bonds: A:I.27, A:N.298, A:L.300, A:D.301 Salt bridges: A:K.334 LMT.9: 13 residues within 4Å: Chain C: I.27, L.28, N.298, L.300, D.301, A.304, K.334, I.337, V.341, P.373, L.376, F.380, M.395 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:I.27, C:I.337, C:V.341, C:P.373, C:L.376, C:F.380 Hydrogen bonds: C:I.27, C:N.298, C:L.300, C:D.301, C:D.301 Salt bridges: C:K.334 LMT.15: 13 residues within 4Å: Chain E: I.27, L.28, N.298, L.300, D.301, A.304, K.334, I.337, V.341, P.373, L.376, F.380, M.395 11 PLIP interactions: 11 interactions with chain E Hydrophobic interactions: E:I.27, E:I.337, E:V.341, E:P.373, E:L.376, E:F.380 Hydrogen bonds: E:I.27, E:N.298, E:L.300, E:D.301 Salt bridges: E:K.334

6 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.4: 4 residues within 4Å: Chain A: D.745, R.792, A.793, A.794 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.745, A:R.792 PGE.5: 5 residues within 4Å: Chain A: Q.697, E.810 Chain B: Y.56, W.57, F.90 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.697 PGE.10: 4 residues within 4Å: Chain C: D.745, R.792, A.793, A.794 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.745, C:R.792 PGE.11: 5 residues within 4Å: Chain C: Q.697, E.810 Chain D: Y.56, W.57, F.90 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Q.697 PGE.16: 4 residues within 4Å: Chain E: D.745, R.792, A.793, A.794 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:D.745, E:R.792 PGE.17: 5 residues within 4Å: Chain E: Q.697, E.810 Chain F: Y.56, W.57, F.90 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:Q.697

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tam, H.K. et al., Allosteric drug transport mechanism of multidrug transporter AcrB. Nat Commun (2021)

Release Date

2021-05-19

Peptides

Multidrug efflux pump subunit AcrB: ACE
DARPIN: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

B
B

D
B

F
B

Membrane

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

DARPIN

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