SMTL ID : 5mr6.6 (5 other biounits)

XiaF from Streptomyces sp. in complex with FADH2 and Glycerol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

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

FAD.1: 19 residues within 4Å: Chain A: W.103, N.107, S.137, V.138, F.139, A.140, Y.160, T.162, W.202, T.383, R.386, H.387, A.388, M.389 Chain D: G.283, A.285, P.286, A.365 Ligands: GOL.2 20 PLIP interactions: 11 interactions with chain A, 9 interactions with chain D Hydrophobic interactions: A:Y.160, A:Y.160, A:W.202, D:A.365 Hydrogen bonds: A:N.107, A:S.137, A:F.139, A:A.140, A:T.162, A:H.387, A:A.388, D:A.285 pi-Cation interactions: A:H.387 Water bridges: D:G.283, D:I.284, D:I.284, D:H.363, D:A.365, D:A.365, D:A.366 FAD.3: 19 residues within 4Å: Chain B: W.103, N.107, S.137, V.138, F.139, A.140, Y.160, T.162, W.202, T.383, R.386, H.387, A.388, M.389 Chain C: G.283, A.285, P.286, A.365 Ligands: GOL.4 18 PLIP interactions: 12 interactions with chain B, 6 interactions with chain C Hydrophobic interactions: B:W.103, B:Y.160, B:W.202, C:A.365 Hydrogen bonds: B:N.107, B:S.137, B:F.139, B:A.140, B:T.162, B:H.387, B:A.388, C:A.285 Water bridges: B:S.137, C:G.283, C:H.363, C:A.365, C:A.366 pi-Cation interactions: B:H.387 FAD.5: 19 residues within 4Å: Chain B: G.283, A.285, P.286, A.365 Chain C: W.103, N.107, S.137, V.138, F.139, A.140, Y.160, T.162, W.202, T.383, R.386, H.387, A.388, M.389 Ligands: GOL.6 18 PLIP interactions: 12 interactions with chain C, 6 interactions with chain B Hydrophobic interactions: C:W.103, C:Y.160, C:W.202, B:A.365 Hydrogen bonds: C:N.107, C:S.137, C:F.139, C:A.140, C:T.162, C:T.162, C:H.387, C:A.388, B:A.285 pi-Cation interactions: C:H.387 Water bridges: B:G.283, B:G.283, B:A.365, B:A.365 FAD.7: 19 residues within 4Å: Chain A: G.283, A.285, P.286, A.365 Chain D: W.103, N.107, S.137, V.138, F.139, A.140, Y.160, T.162, W.202, T.383, R.386, H.387, A.388, M.389 Ligands: GOL.8 19 PLIP interactions: 13 interactions with chain D, 6 interactions with chain A Hydrophobic interactions: D:W.103, D:Y.160, D:Y.160, D:W.202, A:A.365 Hydrogen bonds: D:N.107, D:S.137, D:F.139, D:A.140, D:T.162, D:T.162, D:H.387, D:A.388, A:A.285 pi-Cation interactions: D:H.387 Water bridges: A:G.283, A:S.287, A:A.365, A:A.365

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: S.137, F.139, I.253, M.256, M.389 Ligands: FAD.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.137 GOL.4: 6 residues within 4Å: Chain B: S.137, F.139, I.253, M.256, M.389 Ligands: FAD.3 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.137 Water bridges: B:N.107 GOL.6: 6 residues within 4Å: Chain C: S.137, F.139, I.253, M.256, M.389 Ligands: FAD.5 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:S.137 Water bridges: C:N.107, C:I.253 GOL.8: 6 residues within 4Å: Chain D: S.137, F.139, M.256, H.387, M.389 Ligands: FAD.7 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:S.137 Water bridges: D:N.107

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kugel, S. et al., Cryptic indole hydroxylation by a non-canonical terpenoid cyclase parallels bacterial xenobiotic detoxification. Nat Commun (2017)

Release Date

2017-06-28

Peptides

XiaF protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

XiaF protein

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