SMTL ID : 9emz.3 (3 other biounits)

13C/15N-labelled Integral Membrane Enzyme LspA in the Lipid Cubic Phase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

monomer

Ligands

1 x MLE- IIL- SER- ALO- 5BV: Globomycin

MLE-IIL-SER-ALO-5BV.1: 17 residues within 4Å: Chain A: N.54, G.56, F.59, F.73, I.76, V.105, A.109, N.112, R.116, V.122, D.124, N.140, D.143, I.146, T.147 Ligands: OLC.6, OLC.7 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.59, A:F.59, A:F.73, A:V.105, A:A.109, A:I.146 Hydrogen bonds: A:N.54, A:N.112, A:R.116, A:R.116, A:D.124, A:N.140, A:D.143

6 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate

OLC.2: 5 residues within 4Å: Chain A: I.40, V.41, V.42, W.49 Ligands: OLC.5 No protein-ligand interaction detected (PLIP) OLC.3: 8 residues within 4Å: Chain A: T.16, V.17, F.20, L.110, Y.114, M.117, V.118 Ligands: OLC.4 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:T.16, A:V.17, A:F.20, A:F.20, A:F.20, A:Y.114, A:Y.114, A:M.117 OLC.4: 9 residues within 4Å: Chain A: R.70, W.71, I.78, S.81, A.82, V.85, L.113, M.117 Ligands: OLC.3 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:I.78, A:A.82, A:V.85, A:L.113, A:M.117 Hydrogen bonds: A:R.70, A:R.70, A:R.70 OLC.5: 9 residues within 4Å: Chain A: L.22, S.26, F.29, F.30, E.33, W.49, L.141 Ligands: OLC.2, OLC.6 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.22, A:W.49, A:W.49, A:L.141, A:L.141 Hydrogen bonds: A:E.33, A:E.33 OLC.6: 14 residues within 4Å: Chain A: V.19, L.22, F.136, P.137, A.138, F.139, D.143, S.144, T.147, V.148 Ligands: MLE-IIL-SER-ALO-5BV.1, MLE-IIL-SER-ALO-5BV.1, OLC.5, OLC.7 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.19, A:L.22, A:F.139, A:F.139, A:D.143, A:T.147, A:V.148 Hydrogen bonds: A:N.54, A:A.138 OLC.7: 9 residues within 4Å: Chain A: A.58, F.59, A.150, L.153, A.154 Ligands: MLE-IIL-SER-ALO-5BV.1, MLE-IIL-SER-ALO-5BV.1, MLE-IIL-SER-ALO-5BV.1, OLC.6 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.59, A:A.150, A:L.153, A:A.154

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ramberg, K.O. et al., Solid-state NMR of membrane peptides and proteins in the lipid cubic phase. Biophys.J. (2025)

Release Date

2025-03-26

Peptides

Lipoprotein signal peptidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Membrane

We predict this structure to be a membrane protein.
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Lipoprotein signal peptidase

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