SMTL ID : 7arl.1

LolCDE in complex with lipoprotein and ADP

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-2-1-mer

Ligands

1 x Z41: (2S)-3-hydroxypropane-1,2-diyl dihexadecanoate(Covalent)

Z41.1: 17 residues within 4Å: Chain A: A.40, V.44, V.47, M.48, F.51, E.263, M.266, M.267, L.270, L.336, I.347 Chain B: M.267, I.268, L.278 Chain E: C.1, S.2 Ligands: PLM.6 8 PLIP interactions: 6 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:A.40, A:V.44, A:V.47, A:F.51, A:L.336, A:I.347, B:I.268, B:L.278

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 10 residues within 4Å: Chain B: R.409 Chain C: K.13, Y.15, V.24, G.45, S.46, K.48, S.49, T.50 Ligands: MG.3 7 PLIP interactions: 1 interactions with chain B, 6 interactions with chain C Hydrogen bonds: B:R.409, C:K.13, C:K.13, C:K.48, C:K.48, C:S.49 Salt bridges: C:K.48 ADP.4: 9 residues within 4Å: Chain A: R.397 Chain D: Y.15, S.43, G.45, G.47, K.48, S.49, T.50 Ligands: MG.5 9 PLIP interactions: 7 interactions with chain D, 2 interactions with chain A Hydrogen bonds: D:G.45, D:G.47, D:K.48, D:S.49, D:S.49, D:S.49, D:S.49, A:R.397, A:R.397

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain C: S.49 Ligands: ADP.2 No protein-ligand interaction detected (PLIP) MG.5: 2 residues within 4Å: Chain D: S.49 Ligands: ADP.4 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:S.49

1 x PLM: PALMITIC ACID(Covalent)

PLM.6: 10 residues within 4Å: Chain B: V.43, G.44, A.47, F.51, D.264, I.268, F.367, L.371 Chain E: C.1 Ligands: Z41.1 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:A.47, B:F.51, B:I.268, B:F.367, B:L.371 Hydrogen bonds: B:D.264

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tang, X. et al., Structural basis for bacterial lipoprotein relocation by the transporter LolCDE. Nat.Struct.Mol.Biol. (2021)

Release Date

2021-04-07

Peptides

Lipoprotein-releasing ABC transporter permease subunit LolC: A
Lipoprotein-releasing system transmembrane protein LolE: B
Lipoprotein-releasing system ATP-binding protein LolD: CD
LPP: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
E

C
F

D
D

E
V

Membrane

We predict this structure to be a membrane protein.
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Lipoprotein-releasing ABC transporter permease subunit LolC

Lipoprotein-releasing system transmembrane protein LolE

Lipoprotein-releasing system ATP-binding protein LolD

LPP

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