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SMTL ID : 3hj8.1
Crystal structure determination of catechol 1,2-dioxygenase from rhodococcus opacus 1CP in complex with 4-chlorocatechol
Coordinates
PDB Format
Method
X-RAY DIFFRACTION 2.40 Å
Oligo State
homo-dimer
Ligands
2 x
FE
:
FE (III) ION
(Non-covalent)
FE.1:
4 residues within 4Å:
Chain A:
Y.162
,
H.220
,
H.222
Ligands:
4CL.2
3
PLIP interactions
:
3 interactions with chain A
Metal complexes:
A:Y.162
,
A:H.220
,
A:H.222
FE.4:
4 residues within 4Å:
Chain B:
Y.162
,
H.220
,
H.222
Ligands:
4CL.5
3
PLIP interactions
:
3 interactions with chain B
Metal complexes:
B:Y.162
,
B:H.220
,
B:H.222
2 x
4CL
:
4-CHLOROBENZENE-1,2-DIOL
(Non-covalent)
4CL.2:
13 residues within 4Å:
Chain A:
D.80
,
V.81
,
I.102
,
G.104
,
P.105
,
Y.106
,
Y.162
,
Y.196
,
R.217
,
H.220
,
H.222
,
A.250
Ligands:
FE.1
5
PLIP interactions
:
5 interactions with chain A
Hydrophobic interactions:
A:I.102
,
A:Y.106
,
A:Y.196
Hydrogen bonds:
A:R.217
pi-Cation interactions:
A:R.217
4CL.5:
13 residues within 4Å:
Chain B:
D.80
,
V.81
,
I.102
,
G.104
,
P.105
,
Y.106
,
Y.162
,
Y.196
,
R.217
,
H.220
,
H.222
,
A.250
Ligands:
FE.4
5
PLIP interactions
:
5 interactions with chain B
Hydrophobic interactions:
B:I.102
,
B:Y.106
,
B:Y.196
Hydrogen bonds:
B:R.217
pi-Cation interactions:
B:R.217
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:
20 residues within 4Å:
Chain A:
A.25
,
T.26
,
A.27
,
T.29
,
L.34
,
I.37
,
A.41
,
L.45
,
F.62
Chain B:
L.45
,
V.48
,
I.49
,
E.58
,
V.61
,
F.62
,
W.65
,
F.78
,
L.79
,
Q.206
,
F.207
17
PLIP interactions
:
4 interactions with chain A
,
13 interactions with chain B
Hydrophobic interactions:
A:L.34
,
A:A.41
,
A:L.45
,
A:F.62
,
B:V.48
,
B:E.58
,
B:V.61
,
B:F.62
,
B:F.62
,
B:F.62
,
B:W.65
,
B:W.65
,
B:F.78
,
B:L.79
,
B:Q.206
,
B:F.207
Hydrogen bonds:
B:Q.206
6PL.6:
20 residues within 4Å:
Chain A:
L.45
,
V.48
,
I.49
,
E.58
,
V.61
,
F.62
,
W.65
,
F.78
,
L.79
,
Q.206
,
F.207
Chain B:
A.25
,
T.26
,
A.27
,
T.29
,
L.34
,
I.37
,
A.41
,
L.45
,
F.62
17
PLIP interactions
:
13 interactions with chain A
,
4 interactions with chain B
Hydrophobic interactions:
A:V.48
,
A:E.58
,
A:V.61
,
A:F.62
,
A:F.62
,
A:F.62
,
A:W.65
,
A:W.65
,
A:F.78
,
A:L.79
,
A:Q.206
,
A:F.207
,
B:L.34
,
B:A.41
,
B:L.45
,
B:F.62
Hydrogen bonds:
A:Q.206
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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Catechol 1,2-dioxygenase
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