SMTL ID : 7mdy.1

LolCDE nucleotide-bound

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-2-mer

Ligands

2 x AOV: ADP ORTHOVANADATE

AOV.1: 26 residues within 4Å: Chain C: Y.13, E.15, T.20, V.22, S.41, S.42, G.43, S.44, G.45, K.46, S.47, T.48, Q.92, E.169, H.202 Chain D: R.136, H.139, E.143, L.144, S.145, G.146, G.147, E.148, N.173, L.174 Ligands: MG.2 20 PLIP interactions: 13 interactions with chain C, 7 interactions with chain D Hydrogen bonds: C:S.41, C:G.43, C:S.44, C:G.45, C:K.46, C:K.46, C:S.47, C:S.47, C:S.47, C:T.48, C:Q.92, C:H.202, D:R.136, D:R.136, D:S.145, D:S.145, D:G.147, D:E.148, D:E.148 Salt bridges: C:K.46 AOV.3: 27 residues within 4Å: Chain B: R.397, Y.398 Chain C: R.136, H.139, E.143, L.144, S.145, G.146, G.147, E.148, N.173, L.174 Chain D: Y.13, T.20, V.22, S.41, S.42, G.43, S.44, G.45, K.46, S.47, T.48, Q.92, E.169, H.202 Ligands: MG.4 21 PLIP interactions: 6 interactions with chain C, 14 interactions with chain D, 1 interactions with chain B Hydrogen bonds: C:R.136, C:R.136, C:S.145, C:S.145, C:G.146, C:G.147, D:S.41, D:G.43, D:S.44, D:G.45, D:K.46, D:K.46, D:S.47, D:S.47, D:S.47, D:T.48, D:Q.92, D:E.169, D:H.202, B:R.397 Salt bridges: D:K.46

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain C: K.46, S.47, Q.92, D.168 Ligands: AOV.1 No protein-ligand interaction detected (PLIP) MG.4: 3 residues within 4Å: Chain D: S.47, Q.92 Ligands: AOV.3 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:S.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sharma, S. et al., Mechanism of LolCDE as a molecular extruder of bacterial triacylated lipoproteins. Nat Commun (2021)

Release Date

2021-08-11

Peptides

Lipoprotein transporter subunit LolE: A
Lipo-releasing system transmembrane protein lolC: B
Lipoprotein-releasing system ATP-binding protein LolD: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

C
D

D
C

Membrane

We predict this structure to be a membrane protein.
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Lipoprotein transporter subunit LolE

Lipo-releasing system transmembrane protein lolC

Lipoprotein-releasing system ATP-binding protein LolD

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