SMTL ID : 3en1.1

Crystal structure of Toluene 2,3-Dioxygenase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

hetero-3-3-mer

Ligands

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

FE2.1: 4 residues within 4Å: Chain A: Q.215, H.222, H.228, D.376 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.222, A:H.228, A:D.376, A:D.376 FE2.5: 5 residues within 4Å: Chain B: H.24 Chain D: H.24 Chain F: H.24 Ligands: FE2.10, FE2.15 3 PLIP interactions: 1 interactions with chain F, 1 interactions with chain B, 1 interactions with chain D Metal complexes: F:H.24, B:H.24, D:H.24 FE2.6: 4 residues within 4Å: Chain C: Q.215, H.222, H.228, D.376 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.222, C:H.228, C:D.376, C:D.376 FE2.10: 5 residues within 4Å: Chain B: H.24 Chain D: H.24 Chain F: H.24 Ligands: FE2.5, FE2.15 3 PLIP interactions: 1 interactions with chain F, 1 interactions with chain B, 1 interactions with chain D Metal complexes: F:H.24, B:H.24, D:H.24 FE2.11: 4 residues within 4Å: Chain E: Q.215, H.222, H.228, D.376 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:H.222, E:H.228, E:D.376, E:D.376 FE2.15: 5 residues within 4Å: Chain B: H.24 Chain D: H.24 Chain F: H.24 Ligands: FE2.5, FE2.10 3 PLIP interactions: 1 interactions with chain F, 1 interactions with chain B, 1 interactions with chain D Metal complexes: F:H.24, B:H.24, D:H.24

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

FES.2: 10 residues within 4Å: Chain A: C.96, H.98, R.99, G.100, M.101, C.116, Y.118, H.119, G.120, W.121 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.96, A:H.98, A:C.116, A:H.119 FES.7: 10 residues within 4Å: Chain C: C.96, H.98, R.99, G.100, M.101, C.116, Y.118, H.119, G.120, W.121 4 PLIP interactions: 4 interactions with chain C, Metal complexes: C:C.96, C:H.98, C:C.116, C:H.119 FES.12: 10 residues within 4Å: Chain E: C.96, H.98, R.99, G.100, M.101, C.116, Y.118, H.119, G.120, W.121 4 PLIP interactions: 4 interactions with chain E, Metal complexes: E:C.96, E:H.98, E:C.116, E:H.119

3 x PE3: 3,6,9,12,15,18,21,24,27,30,33,36,39-TRIDECAOXAHENTETRACONTANE-1,41-DIOL(Non-functional Binders)

PE3.3: 7 residues within 4Å: Chain A: T.37, N.336, Q.384, L.387, R.388, R.393 Chain C: E.39 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.388 PE3.8: 7 residues within 4Å: Chain C: T.37, N.336, Q.384, L.387, R.388, R.393 Chain E: E.39 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:R.388 PE3.13: 7 residues within 4Å: Chain A: E.39 Chain E: T.37, N.336, Q.384, L.387, R.388, R.393 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:R.388

3 x MBN: TOLUENE(Non-covalent)

MBN.4: 8 residues within 4Å: Chain A: Q.215, F.216, D.219, H.222, A.223, H.311, L.321, F.366 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Q.215, A:A.223, A:H.311, A:L.321, A:F.366 pi-Stacking: A:F.216, A:H.222 MBN.9: 8 residues within 4Å: Chain C: Q.215, F.216, D.219, H.222, A.223, H.311, L.321, F.366 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:Q.215, C:A.223, C:H.311, C:L.321, C:F.366 pi-Stacking: C:F.216, C:H.222 MBN.14: 8 residues within 4Å: Chain E: Q.215, F.216, D.219, H.222, A.223, H.311, L.321, F.366 7 PLIP interactions: 7 interactions with chain E Hydrophobic interactions: E:Q.215, E:A.223, E:H.311, E:L.321, E:F.366 pi-Stacking: E:F.216, E:H.222

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Friemann, R. et al., Structures of the multicomponent Rieske non-heme iron toluene 2,3-dioxygenase enzyme system. Acta Crystallogr.,Sect.D (2009)

Release Date

2009-03-17

Peptides

Benzene 1,2-dioxygenase subunit alpha: ACE
Benzene 1,2-dioxygenase subunit beta: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

B
B

D
B

F
B

Benzene 1,2-dioxygenase subunit alpha

Benzene 1,2-dioxygenase subunit beta

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