SMTL ID : 6wn3.1

Structure of the Rieske non-heme iron oxygenase SxtT

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.86 Å

Oligo State

homo-trimer

Ligands

3 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)

FES.1: 9 residues within 4Å: Chain A: C.55, H.57, R.58, V.60, C.74, Y.76, H.77, G.78, W.79 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.55, A:H.57, A:C.74, A:H.77 FES.12: 9 residues within 4Å: Chain B: C.55, H.57, R.58, V.60, C.74, Y.76, H.77, G.78, W.79 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.55, B:H.57, B:C.74, B:H.77 FES.21: 9 residues within 4Å: Chain C: C.55, H.57, R.58, V.60, C.74, Y.76, H.77, G.78, W.79 4 PLIP interactions: 4 interactions with chain C, Metal complexes: C:C.55, C:H.57, C:C.74, C:H.77

9 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: P.23, R.40, N.45 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.40, A:R.40, A:N.45 Water bridges: A:E.43, A:N.45 GOL.3: 3 residues within 4Å: Chain A: R.112, D.126, I.127 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.112, A:I.127 Water bridges: A:W.12, A:N.125 GOL.4: 4 residues within 4Å: Chain A: H.139, G.261, S.262, E.263 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.263 GOL.5: 5 residues within 4Å: Chain A: H.93, P.94, D.95, M.96 Chain B: K.180 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.95, A:M.96 GOL.13: 3 residues within 4Å: Chain B: R.112, Y.113, W.133 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.113 Water bridges: B:G.114 GOL.14: 4 residues within 4Å: Chain B: Q.288, P.289, A.290, R.291 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.288, B:A.290, B:R.291, B:R.291 GOL.15: 4 residues within 4Å: Chain B: N.70, N.82, Q.83, A.84 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.70, B:N.82, B:Q.83, B:A.84 GOL.22: 3 residues within 4Å: Chain C: R.112, Y.113, W.133 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:R.112, C:Y.113 Water bridges: C:E.111, C:G.114 GOL.23: 2 residues within 4Å: Chain B: M.64 Chain C: R.282 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:R.282, C:R.282

3 x FE: FE (III) ION(Non-covalent)

FE.6: 3 residues within 4Å: Chain A: H.164, H.169, D.280 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.164, A:H.169, A:D.280, H2O.3, H2O.8 FE.16: 3 residues within 4Å: Chain B: H.164, H.169, D.280 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.164, B:H.169, B:D.280, H2O.17, H2O.22 FE.24: 3 residues within 4Å: Chain C: H.164, H.169, D.280 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:H.164, C:H.169, C:D.280, H2O.30, H2O.32

12 x SO4: SULFATE ION(Non-functional Binders)

SO4.7: 2 residues within 4Å: Chain A: N.69, R.80 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.69 Water bridges: A:R.80 Salt bridges: A:R.80 SO4.8: 1 residues within 4Å: Chain A: Q.83 3 PLIP interactions: 3 interactions with chain A Water bridges: A:N.70, A:N.70, A:Q.83 SO4.9: 2 residues within 4Å: Chain A: K.197, W.217 5 PLIP interactions: 5 interactions with chain A Water bridges: A:K.187, A:K.187, A:K.197, A:K.197 Salt bridges: A:K.187 SO4.10: 2 residues within 4Å: Chain A: P.306, Q.307 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.307 SO4.11: 2 residues within 4Å: Chain A: R.282 Chain C: M.64 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.282 SO4.17: 2 residues within 4Å: Chain B: P.312, R.315 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.315 SO4.18: 2 residues within 4Å: Chain A: M.64 Chain B: R.282 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.282 SO4.19: 1 residues within 4Å: Chain B: H.93 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Salt bridges: B:H.93, C:K.180 SO4.20: 4 residues within 4Å: Chain B: P.23, R.40, Q.44, N.45 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.45, B:N.45 Water bridges: B:R.40, B:R.40 Salt bridges: B:R.40 SO4.25: 4 residues within 4Å: Chain C: N.70, N.82, Q.83, A.84 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:N.70, C:Q.83, C:Q.83, C:A.84 Water bridges: C:N.70, C:N.82 SO4.26: 4 residues within 4Å: Chain C: W.217, V.229, E.231, R.236 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:E.231 Salt bridges: C:K.197, C:R.236 SO4.27: 4 residues within 4Å: Chain C: H.139, G.261, S.262, E.263 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:S.262, C:E.263 Salt bridges: C:H.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lukowski, A.L. et al., Structural basis for divergent C-H hydroxylation selectivity in two Rieske oxygenases. Nat Commun (2020)

Release Date

2020-06-17

Peptides

SxtT: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

SxtT

Related Entries With Identical Sequence