SMTL ID : 7wax.1

MurJ inward occluded form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

monomer

Ligands

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

OLC.1: 12 residues within 4Å: Chain A: L.311, F.315, M.362, G.363, C.419, A.422, L.423, Y.426, P.437, W.441, G.442 Ligands: OLC.6 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.311, A:F.315, A:A.422, A:L.423, A:Y.426, A:Y.426, A:W.441 OLC.2: 9 residues within 4Å: Chain A: V.98, A.101, G.102, L.104, A.105, W.108, I.109, R.132, F.135 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:V.98, A:A.105, A:W.108, A:W.108, A:W.108, A:W.108, A:I.109, A:F.135 Hydrogen bonds: A:R.132 Water bridges: A:R.132 OLC.3: 8 residues within 4Å: Chain A: F.16, S.158, F.162, I.169, S.170, I.173, L.199, Y.203 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.16, A:F.162, A:I.169, A:I.173, A:L.199 Hydrogen bonds: A:Y.203 Water bridges: A:S.158 OLC.4: 9 residues within 4Å: Chain A: I.248, I.249, I.252, F.253, F.256, L.257, I.402, G.403 Ligands: OLC.5 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.248, A:I.248, A:I.249, A:I.249, A:I.252, A:F.253, A:F.256 OLC.5: 6 residues within 4Å: Chain A: Y.111, P.115, T.118, D.119, F.256 Ligands: OLC.4 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.111, A:P.115, A:P.115, A:F.256, A:F.256 Water bridges: A:F.256 OLC.6: 9 residues within 4Å: Chain A: F.315, L.319, A.322, C.358, L.423, Y.426, W.427, R.430 Ligands: OLC.1 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.315, A:L.319, A:A.322 Hydrogen bonds: A:Y.426, A:R.430 OLC.7: 14 residues within 4Å: Chain A: I.23, A.26, L.274, P.275, P.320, L.325, L.332, L.336, M.455, M.474, I.478, L.482, V.485, A.489 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.275, A:P.320, A:L.325, A:L.332, A:L.482, A:V.485, A:V.485, A:A.489 OLC.8: 13 residues within 4Å: Chain A: P.48, L.51, R.52, F.55, A.56, F.60, S.61, L.91, L.95, I.109, S.142, S.145, L.146 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:P.48, A:L.51, A:F.55, A:A.56, A:F.60, A:L.91, A:I.109 Hydrogen bonds: A:S.61, A:S.61

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.9: 7 residues within 4Å: Chain A: S.88, L.143, L.146, A.147, L.201, L.208, P.217 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.143, A:A.147, A:L.201, A:L.208 MPD.10: 6 residues within 4Å: Chain A: R.46, L.47, L.247, N.250, T.251, V.262 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.47, A:V.262 Hydrogen bonds: A:R.46

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kohga, H. et al., Crystal structure of the lipid flippase MurJ in a "squeezed" form distinct from its inward- and outward-facing forms. Structure (2022)

Release Date

2022-06-01

Peptides

lipid II flippase MurJ: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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lipid II flippase MurJ

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