SMTL ID : 7b0o.1 (1 other biounit)

In meso structure of the membrane integral lipoprotein intramolecular transacylase Lit from Bacillus cereus in space group P21

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.33 Å

Oligo State

monomer

Ligands

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

OLC.1: 10 residues within 4Å: Chain A: F.37, T.41, V.108, F.152, L.156, F.168, F.171, H.172, F.199 Ligands: OLC.2 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.37, A:F.37, A:F.37, A:T.41, A:F.152, A:F.152, A:F.152, A:L.156, A:F.171, A:F.171 OLC.2: 21 residues within 4Å: Chain A: V.45, L.78, I.79, L.82, H.104, F.105, V.108, F.164, S.167, F.168, F.171, H.172, W.181, F.183, I.191, L.194, F.198, F.199, A.202, A.203 Ligands: OLC.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:V.45, A:L.78, A:I.79, A:L.82, A:F.105, A:F.164, A:F.168, A:F.168, A:F.171, A:F.171, A:F.198, A:F.199 Hydrogen bonds: A:W.181 Salt bridges: A:H.104 OLC.3: 9 residues within 4Å: Chain A: P.153, I.154, M.157, A.161, C.204, L.207, L.208, L.211 Ligands: OLC.6 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:P.153, A:I.154, A:M.157, A:A.161, A:L.207, A:L.208, A:L.211, A:L.211 Hydrogen bonds: A:A.161 OLC.4: 8 residues within 4Å: Chain A: M.42, Y.46, S.83, P.84, Q.116, M.119, Y.120, I.123 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.120, A:I.123 Hydrogen bonds: A:Q.116 OLC.6: 8 residues within 4Å: Chain A: M.200, H.201, C.204, A.205, L.208, F.209, G.212 Ligands: OLC.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:H.201, A:L.208, A:L.208, A:F.209 OLC.12: 10 residues within 4Å: Chain A: I.36, L.39, A.40, A.126, G.130, I.131, L.134, F.141, L.142, C.217 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.131, A:L.134, A:F.141, A:L.142 Hydrogen bonds: A:I.36

1 x PE5: 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL(Non-covalent)

PE5.5: 4 residues within 4Å: Chain A: F.176, S.177, N.178, D.179 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.176

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 3 residues within 4Å: Chain A: Y.52, K.72, R.73 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.73, A:R.73 GOL.8: 1 residues within 4Å: Chain A: A.89 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.89 GOL.9: 4 residues within 4Å: Chain A: P.84, V.113, Y.117 Ligands: GOL.10 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.117, A:Y.117 GOL.10: 5 residues within 4Å: Chain A: P.84, F.85, Y.117, Y.120 Ligands: GOL.9 No protein-ligand interaction detected (PLIP) GOL.11: 7 residues within 4Å: Chain A: D.107, N.110, I.111, L.175, F.176, S.177, N.178 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.107, A:D.107, A:N.110, A:S.177, A:N.178 Water bridges: A:N.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Olatunji, S. et al., Structural basis of the membrane intramolecular transacylase reaction responsible for lyso-form lipoprotein synthesis. Nat Commun (2021)

Release Date

2021-05-26

Peptides

Hypothetical Membrane Spanning Protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Hypothetical Membrane Spanning Protein

Related Entries With Identical Sequence