SMTL ID : 6ll0.1

Carbazole-soaked reduced oxygenase in carbazole 1,9a-dioxygenase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-trimer

Ligands

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

FES.1: 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.14: 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.29: 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

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

FE2.2: 4 residues within 4Å: Chain A: H.183, H.187, D.333 Ligands: 9CA.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.183, A:H.187, A:D.333, A:D.333 FE2.15: 3 residues within 4Å: Chain B: H.183, H.187, D.333 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.183, B:H.187, B:D.333, B:D.333, H2O.10 FE2.30: 3 residues within 4Å: Chain C: H.183, H.187, D.333 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.183, C:H.187, C:D.333, C:D.333

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

9CA.3: 13 residues within 4Å: Chain A: G.178, D.180, H.183, A.259, I.262, L.270, V.272, F.275, Q.282, E.284, F.329, N.330 Ligands: FE2.2 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:A.259, A:I.262, A:L.270, A:V.272, A:F.329 Hydrogen bonds: A:G.178 pi-Stacking: A:F.275 9CA.31: 12 residues within 4Å: Chain C: G.178, H.183, I.184, A.259, I.262, L.270, V.272, F.275, Q.282, E.284, F.329, N.330 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:I.184, C:A.259, C:I.262, C:L.270, C:F.329 Hydrogen bonds: C:G.178 pi-Stacking: C:F.275

22 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 5 residues within 4Å: Chain A: F.34, K.36, L.161, G.162, F.317 Ligand excluded by PLIP EDO.5: 4 residues within 4Å: Chain A: Q.75, S.77, V.78 Ligands: EDO.17 Ligand excluded by PLIP EDO.6: 4 residues within 4Å: Chain A: C.82, K.83, T.84, K.85 Ligand excluded by PLIP EDO.7: 4 residues within 4Å: Chain A: W.29, K.61, V.126, P.142 Ligand excluded by PLIP EDO.8: 5 residues within 4Å: Chain A: K.22, N.170, R.172, E.291, D.347 Ligand excluded by PLIP EDO.9: 4 residues within 4Å: Chain A: T.84, S.86 Chain B: I.243, E.246 Ligand excluded by PLIP EDO.10: 3 residues within 4Å: Chain A: N.196, K.320 Ligands: PEG.11 Ligand excluded by PLIP EDO.17: 5 residues within 4Å: Chain A: V.78 Chain B: W.335, E.338, A.339 Ligands: EDO.5 Ligand excluded by PLIP EDO.18: 4 residues within 4Å: Chain B: K.47, N.52 Chain C: D.342 Ligands: EDO.26 Ligand excluded by PLIP EDO.19: 6 residues within 4Å: Chain B: D.106, I.107, L.108, P.111, I.116 Chain C: T.242 Ligand excluded by PLIP EDO.20: 3 residues within 4Å: Chain B: N.164, I.166, Y.295 Ligand excluded by PLIP EDO.21: 6 residues within 4Å: Chain B: S.190, I.191, L.192, M.324, G.328, F.329 Ligand excluded by PLIP EDO.22: 5 residues within 4Å: Chain B: K.188, R.249, G.251, A.252 Ligands: EDO.24 Ligand excluded by PLIP EDO.23: 6 residues within 4Å: Chain B: V.12, K.13, G.14, W.15, A.16, P.17 Ligand excluded by PLIP EDO.24: 9 residues within 4Å: Chain B: K.188, L.200, P.201, L.202, R.249, E.250, G.251, A.252 Ligands: EDO.22 Ligand excluded by PLIP EDO.25: 4 residues within 4Å: Chain B: W.350, V.351, E.353, L.355 Ligand excluded by PLIP EDO.26: 7 residues within 4Å: Chain B: K.47, G.50, E.51, N.52, K.66, V.382 Ligands: EDO.18 Ligand excluded by PLIP EDO.27: 3 residues within 4Å: Chain B: N.277, E.316, W.321 Ligand excluded by PLIP EDO.32: 3 residues within 4Å: Chain A: D.342 Chain C: K.47, N.52 Ligand excluded by PLIP EDO.33: 3 residues within 4Å: Chain C: M.33, E.37, K.44 Ligand excluded by PLIP EDO.34: 4 residues within 4Å: Chain C: L.23, D.290, E.291, N.292 Ligand excluded by PLIP EDO.35: 4 residues within 4Å: Chain C: C.82, K.83, T.84, K.85 Ligand excluded by PLIP

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

PEG.11: 4 residues within 4Å: Chain A: K.256, N.277, P.278 Ligands: EDO.10 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.256, A:N.277 PEG.12: 4 residues within 4Å: Chain A: K.47, N.52, Q.75 Chain B: D.342 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.47, A:N.52 Water bridges: A:Q.75, A:Q.75 PEG.28: 3 residues within 4Å: Chain B: N.27, D.139, Q.374 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.27

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.13: 5 residues within 4Å: Chain A: G.14, K.367, L.368, S.370, E.371 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.16: 3 residues within 4Å: Chain B: D.197, Y.253, G.254 6 PLIP interactions: 2 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.197, B:Y.253, H2O.6, H2O.7, H2O.8, H2O.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, Y.X. et al., Carbazole-soaked reduced oxygenase in carbazole 1,9a-dioxygenase. To Be Published

Release Date

2021-01-27

Peptides

Terminal oxygenase component of carbazole: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Terminal oxygenase component of carbazole

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