SMTL ID : 6c6r.1

Human Squalene Epoxidase (SQLE, Squalene Monooxygenase) structure with FAD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-dimer

Ligands

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 31 residues within 4Å: Chain A: G.14, A.15, G.16, V.17, L.18, I.36, E.37, R.38, R.45, V.47, G.48, E.49, F.50, R.118, G.132, V.133, V.134, A.168, D.169, G.170, F.190, Y.219, M.272, P.273, G.291, D.292, P.299, G.302, G.303, G.304, M.305 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:V.47, A:V.47, A:F.190, A:M.272, A:P.299 Hydrogen bonds: A:A.15, A:A.15, A:V.17, A:L.18, A:R.38, A:G.48, A:E.49, A:F.50, A:F.50, A:R.118, A:V.134, A:V.134, A:D.292, A:D.292, A:G.304, A:M.305 Water bridges: A:R.38, A:R.38, A:R.297, A:G.303 Salt bridges: A:R.45 FAD.7: 31 residues within 4Å: Chain B: G.14, A.15, G.16, V.17, L.18, I.36, E.37, R.38, R.45, V.47, G.48, E.49, F.50, R.118, G.132, V.133, V.134, A.168, D.169, G.170, F.190, Y.219, M.272, P.273, G.291, D.292, P.299, G.302, G.303, G.304, M.305 25 PLIP interactions: 25 interactions with chain B Hydrophobic interactions: B:V.47, B:F.190, B:M.272, B:P.299 Hydrogen bonds: B:A.15, B:A.15, B:V.17, B:L.18, B:R.38, B:R.38, B:G.48, B:E.49, B:F.50, B:F.50, B:R.118, B:V.134, B:V.134, B:Y.219, B:D.292, B:D.292, B:G.304, B:M.305, B:T.306 Salt bridges: B:R.45 pi-Cation interactions: B:R.38

7 x CPS: 3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE(Non-covalent)

CPS.2: 8 residues within 4Å: Chain A: L.381, C.385, I.412, Y.413, Y.416 Chain B: G.405, H.406, A.409 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.381, A:I.412, A:Y.413, A:Y.416, A:Y.416, B:A.409 Water bridges: A:Y.378, A:Y.378 CPS.3: 6 residues within 4Å: Chain A: F.446, P.447, Y.450 Chain B: L.431, L.432 Ligands: CPS.4 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:L.431, B:L.431, A:Y.450, A:Y.450, A:Y.450 CPS.4: 8 residues within 4Å: Chain A: Y.439, C.442, S.443, F.446, P.447 Chain B: G.435, Y.439 Ligands: CPS.3 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.439, A:F.446 Hydrogen bonds: A:S.443 CPS.5: 6 residues within 4Å: Chain A: K.317, L.318, G.321, A.330, E.333, S.337 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:A.330, A:E.333 Hydrogen bonds: A:L.318, A:G.321, A:S.337, A:S.337 CPS.8: 8 residues within 4Å: Chain A: N.399, G.405, A.409 Chain B: Y.378, L.381, I.412, Y.413, Y.416 9 PLIP interactions: 4 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:A.409, B:Y.378, B:L.381, B:I.412, B:Y.413, B:Y.416 Hydrogen bonds: A:N.399 Water bridges: A:Y.378, A:Y.378 CPS.9: 8 residues within 4Å: Chain A: G.435, Y.439 Chain B: Y.439, C.442, S.443, F.446, P.447 Ligands: CPS.10 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.446 CPS.10: 6 residues within 4Å: Chain A: P.428, L.431, L.432 Chain B: F.446, Y.450 Ligands: CPS.9 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:P.428, A:L.431, A:L.432, B:Y.450, B:Y.450, B:Y.450

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.6: 3 residues within 4Å: Chain A: L.353, P.389, F.407 No protein-ligand interaction detected (PLIP) PEG.11: 3 residues within 4Å: Chain B: L.353, P.389, F.407 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Padyana, A.K. et al., Structure and inhibition mechanism of the catalytic domain of human squalene epoxidase. Nat Commun (2019)

Release Date

2019-01-16

Peptides

Squalene monooxygenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Squalene monooxygenase

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