SMTL ID : 7rr7.1

Multidrug efflux pump subunit AcrB

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

Ligands

15 x PTY: PHOSPHATIDYLETHANOLAMINE(Non-covalent)

PTY.1: 10 residues within 4Å: Chain A: M.1, F.4, F.5, I.15, I.487 Ligands: PTY.2, PTY.5, D12.7, D12.8, D12.25 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.4, A:F.4, A:F.5, A:F.5, A:I.15, A:I.487 PTY.2: 6 residues within 4Å: Chain A: M.1, Q.439, V.443 Ligands: PTY.1, D12.7, PTY.20 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.443 PTY.3: 11 residues within 4Å: Chain A: F.386, V.454, A.457, F.458, R.468, I.472, V.475, S.476, A.479 Ligands: PTY.4, PTY.19 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.386, A:I.472, A:V.475, A:A.479 Salt bridges: A:R.468 PTY.4: 8 residues within 4Å: Chain A: F.386, S.450, V.454, F.458, V.475 Ligands: PTY.3, D12.9, PTY.19 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.454, A:F.458, A:F.458, A:V.475 PTY.5: 11 residues within 4Å: Chain A: F.4, R.8, F.11, V.14, I.15 Chain B: A.890, L.891, E.893 Ligands: PTY.1, D12.8, PTY.12 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.11, A:V.14, A:I.15, B:A.890 Salt bridges: A:R.8, A:R.8 PTY.10: 11 residues within 4Å: Chain B: M.1, F.4, F.5, F.11, I.15, L.483 Ligands: PTY.11, PTY.12, PTY.21, D12.23, D12.24 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:I.15, B:L.483, B:L.483 PTY.11: 10 residues within 4Å: Chain B: M.1, P.2, Q.439, V.482, L.483, L.486 Ligands: PTY.10, PTY.12, D12.23, D12.25 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:V.482, B:L.483 Hydrogen bonds: B:Q.439 PTY.12: 5 residues within 4Å: Chain B: Q.439, V.443 Ligands: PTY.5, PTY.10, PTY.11 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:V.443 Hydrogen bonds: B:Q.439 PTY.13: 18 residues within 4Å: Chain B: V.382, F.386, G.387, F.388, A.446, M.447, S.450, V.454, A.457, F.458, R.468, S.471, I.472, V.475, S.476, A.479, L.480 Ligands: PTY.14 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:V.382, B:F.386, B:F.458, B:V.475, B:A.479, B:L.480 Hydrogen bonds: B:G.387 Salt bridges: B:R.468 PTY.14: 5 residues within 4Å: Chain B: A.385, F.386 Chain C: F.386 Ligands: PTY.13, PTY.18 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:F.386 PTY.15: 9 residues within 4Å: Chain A: L.21, A.22, K.29 Chain B: P.455, F.458, F.459, G.460, Q.872, I.879 10 PLIP interactions: 6 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:P.455, B:F.458, B:F.458, B:I.879, A:L.21, A:L.21, A:A.22 Hydrogen bonds: B:G.460, B:G.460 Salt bridges: A:K.29 PTY.18: 6 residues within 4Å: Chain B: A.385 Chain C: A.385, F.386, I.472, V.475 Ligands: PTY.14 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:F.386, C:I.472 Salt bridges: C:R.468 PTY.19: 17 residues within 4Å: Chain A: M.447, S.450, A.451, V.454, P.455, F.458, L.876, V.883 Chain C: A.22, L.25, K.29, A.381, A.384, A.385, G.387 Ligands: PTY.3, PTY.4 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:V.454, A:P.455, A:F.458, A:V.883, C:L.25, C:A.385 Salt bridges: C:K.29 PTY.20: 10 residues within 4Å: Chain A: G.440, V.443, M.447, C.887, A.890, L.891 Chain C: F.4, F.11, I.15 Ligands: PTY.2 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:F.11, C:I.15 Hydrogen bonds: A:G.440 PTY.21: 14 residues within 4Å: Chain B: F.4, R.8, F.11, I.15 Chain C: G.440, V.443, G.444, M.447, C.887, A.890, L.891, E.893 Ligands: PTY.10, D12.24 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:V.443, C:M.447, C:A.890, C:L.891, B:F.11 Hydrogen bonds: C:E.893

12 x D12: DODECANE(Non-covalent)(Non-functional Binders)

D12.6: 2 residues within 4Å: Chain A: M.20, I.370 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.370 D12.7: 3 residues within 4Å: Ligands: PTY.1, PTY.2, D12.25 No protein-ligand interaction detected (PLIP) D12.8: 2 residues within 4Å: Ligands: PTY.1, PTY.5 No protein-ligand interaction detected (PLIP) D12.9: 1 residues within 4Å: Ligands: PTY.4 No protein-ligand interaction detected (PLIP) D12.16: 1 residues within 4Å: Ligands: D12.22 No protein-ligand interaction detected (PLIP) D12.17: 1 residues within 4Å: Chain B: V.382 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:V.382 D12.22: 4 residues within 4Å: Chain C: M.1 Ligands: D12.16, D12.23, D12.25 No protein-ligand interaction detected (PLIP) D12.23: 4 residues within 4Å: Ligands: PTY.10, PTY.11, D12.22, D12.24 No protein-ligand interaction detected (PLIP) D12.24: 6 residues within 4Å: Chain B: F.11 Chain C: V.443 Ligands: PTY.10, PTY.21, D12.23, D12.27 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:V.443, B:F.11 D12.25: 4 residues within 4Å: Ligands: PTY.1, D12.7, PTY.11, D12.22 No protein-ligand interaction detected (PLIP) D12.26: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) D12.27: 3 residues within 4Å: Chain C: M.1, L.486 Ligands: D12.24 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.486

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Trinh, T.K.H. et al., pH-tunable membrane-active polymers, NCMNP2a- x , and their potential membrane protein applications. Chem Sci (2023)

Release Date

2022-08-17

Peptides

Multidrug efflux pump subunit AcrB: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
A

Membrane

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

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