SMTL ID : 4nbb.1

Carbazole- and oxygen-bound oxygenase with Ile262 replaced by Val and ferredoxin complex of carbazole 1,9a-dioxygenase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

hetero-3-3-mer

Ligands

3 x FE2: FE (II) ION(Non-covalent)

FE2.1: 4 residues within 4Å: Chain A: H.183, H.187, D.333 Ligands: OXY.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.183, A:H.187, A:D.333, A:D.333 FE2.4: 4 residues within 4Å: Chain B: H.183, H.187, D.333 Ligands: OXY.6 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.183, B:H.187, B:D.333, B:D.333 FE2.8: 4 residues within 4Å: Chain C: H.183, H.187, D.333 Ligands: OXY.10 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.183, C:H.187, C:D.333, C:D.333

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

FES.2: 9 residues within 4Å: Chain A: C.69, H.71, R.72, V.74, C.90, Y.92, H.93, A.94, W.95 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.69, A:H.71, A:C.90, A:H.93 FES.5: 9 residues within 4Å: Chain B: C.69, H.71, R.72, V.74, C.90, Y.92, H.93, A.94, W.95 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.69, B:H.71, B:C.90, B:H.93 FES.9: 9 residues within 4Å: Chain C: C.69, H.71, R.72, V.74, C.90, Y.92, H.93, A.94, W.95 4 PLIP interactions: 4 interactions with chain C, Metal complexes: C:C.69, C:H.71, C:C.90, C:H.93 FES.12: 9 residues within 4Å: Chain D: C.46, H.48, G.49, A.51, C.65, F.67, H.68, G.70, C.84 4 PLIP interactions: 4 interactions with chain D, Metal complexes: D:C.46, D:H.48, D:C.65, D:H.68 FES.13: 9 residues within 4Å: Chain E: C.46, H.48, G.49, A.51, C.65, F.67, H.68, G.70, C.84 4 PLIP interactions: 4 interactions with chain E, Metal complexes: E:C.46, E:H.48, E:C.65, E:H.68 FES.14: 9 residues within 4Å: Chain F: C.46, H.48, G.49, A.51, C.65, F.67, H.68, G.70, C.84 4 PLIP interactions: 4 interactions with chain F, Metal complexes: F:C.46, F:H.48, F:C.65, F:H.68

3 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.3: 6 residues within 4Å: Chain A: H.183, H.187, F.329, N.330, D.333 Ligands: FE2.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.330 Water bridges: A:N.177, A:Q.282 OXY.6: 7 residues within 4Å: Chain B: H.183, H.187, F.329, N.330, D.333 Ligands: FE2.4, 9CA.7 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.330 Water bridges: B:N.177 OXY.10: 7 residues within 4Å: Chain C: H.183, H.187, F.329, N.330, D.333 Ligands: FE2.8, 9CA.11 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.330

2 x 9CA: 9H-CARBAZOLE(Non-covalent)

9CA.7: 11 residues within 4Å: Chain B: G.178, H.183, A.259, L.270, V.272, F.275, Q.282, E.284, F.329, N.330 Ligands: OXY.6 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:A.259, B:L.270, B:F.329 Hydrogen bonds: B:G.178 pi-Stacking: B:F.275 9CA.11: 12 residues within 4Å: Chain C: G.178, H.183, A.259, V.262, L.270, V.272, F.275, Q.282, E.284, F.329, N.330 Ligands: OXY.10 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:A.259, C:V.262, C:L.270, C:V.272, C:V.272, C:F.329 Hydrogen bonds: C:G.178 pi-Stacking: C:F.275

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Inoue, K. et al., Structural basis of the divergent oxygenation reactions catalyzed by the rieske nonheme iron oxygenase carbazole 1,9a-dioxygenase. Appl.Environ.Microbiol. (2014)

Release Date

2014-03-26

Peptides

Terminal oxygenase component of carbazole: ABC
Ferredoxin CarAc: DEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Terminal oxygenase component of carbazole

Ferredoxin CarAc

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