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SMTL ID : 3i4y.1
Crystal structure determination of Catechol 1,2-Dioxygenase from Rhodococcus opacus 1CP in complex with 3,5-dichlorocatechol
Coordinates
PDB Format
Method
X-RAY DIFFRACTION 1.85 Å
Oligo State
homo-dimer
Ligands
2 x
FE
:
FE (III) ION
(Non-covalent)
FE.1:
4 residues within 4Å:
Chain A:
Y.152
,
H.210
,
H.212
Ligands:
35C.2
3
PLIP interactions
:
3 interactions with chain A
Metal complexes:
A:Y.152
,
A:H.210
,
A:H.212
FE.4:
4 residues within 4Å:
Chain B:
Y.152
,
H.210
,
H.212
Ligands:
35C.5
3
PLIP interactions
:
3 interactions with chain B
Metal complexes:
B:Y.152
,
B:H.210
,
B:H.212
2 x
35C
:
3,5-dichlorobenzene-1,2-diol
(Non-covalent)
35C.2:
13 residues within 4Å:
Chain A:
L.67
,
V.71
,
I.92
,
G.94
,
P.95
,
Y.96
,
Y.152
,
Y.186
,
I.188
,
R.207
,
H.210
,
H.212
Ligands:
FE.1
4
PLIP interactions
:
4 interactions with chain A
Hydrophobic interactions:
A:V.71
,
A:Y.96
,
A:Y.186
Hydrogen bonds:
A:R.207
35C.5:
13 residues within 4Å:
Chain B:
L.67
,
V.71
,
I.92
,
G.94
,
P.95
,
Y.96
,
Y.152
,
Y.186
,
I.188
,
R.207
,
H.210
,
H.212
Ligands:
FE.4
4
PLIP interactions
:
4 interactions with chain B
Hydrophobic interactions:
B:V.71
,
B:Y.96
,
B:Y.186
Hydrogen bonds:
B:R.207
2 x
6PL
:
(4S,7R)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSAN-1-AMINIUM 4-OXIDE
(Non-covalent)
6PL.3:
18 residues within 4Å:
Chain A:
A.15
,
T.16
,
A.17
,
T.19
,
I.27
,
F.52
Chain B:
L.35
,
V.38
,
I.39
,
E.48
,
V.51
,
F.52
,
W.55
,
W.65
,
L.69
,
Q.196
,
F.197
Ligands:
6PL.6
19
PLIP interactions
:
17 interactions with chain B
,
2 interactions with chain A
Hydrophobic interactions:
B:L.35
,
B:V.38
,
B:I.39
,
B:E.48
,
B:E.48
,
B:V.51
,
B:F.52
,
B:F.52
,
B:F.52
,
B:W.55
,
B:W.55
,
B:W.65
,
B:L.69
,
B:Q.196
,
B:F.197
,
B:F.197
,
A:I.27
,
A:F.52
Water bridges:
B:Q.196
6PL.6:
18 residues within 4Å:
Chain A:
L.35
,
V.38
,
I.39
,
E.48
,
V.51
,
F.52
,
W.55
,
W.65
,
L.69
,
Q.196
,
F.197
Chain B:
A.15
,
T.16
,
A.17
,
T.19
,
I.27
,
F.52
Ligands:
6PL.3
19
PLIP interactions
:
2 interactions with chain B
,
17 interactions with chain A
Hydrophobic interactions:
B:I.27
,
B:F.52
,
A:L.35
,
A:V.38
,
A:I.39
,
A:E.48
,
A:E.48
,
A:V.51
,
A:F.52
,
A:F.52
,
A:F.52
,
A:W.55
,
A:W.55
,
A:W.65
,
A:L.69
,
A:Q.196
,
A:F.197
,
A:F.197
Water bridges:
A:Q.196
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Matera, I. et al., Catechol 1,2-dioxygenase from the Gram-positive Rhodococcus opacus 1CP: Quantitative structure/activity relationship and the crystal structures of native enzyme and catechols adducts. J.Struct.Biol. (2010)
Release Date
2010-01-12
Peptides
Catechol 1,2-dioxygenase:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
A
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