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SMTL ID : 1lkc.1
Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase from Salmonella enterica
Coordinates
PDB Format
Method
X-RAY DIFFRACTION 1.80 Å
Oligo State
homo-dimer
Ligands
2 x
PO4
:
PHOSPHATE ION
(Non-functional Binders)
PO4.1:
7 residues within 4Å:
Chain A:
H.8
,
G.9
,
F.108
,
N.157
,
R.323
,
Y.328
,
R.337
10
PLIP interactions
:
10 interactions with chain A
Hydrogen bonds:
A:G.9
,
A:S.30
,
A:N.157
,
A:Y.328
Water bridges:
A:R.323
,
A:R.323
,
A:Y.328
Salt bridges:
A:H.8
,
A:R.323
,
A:R.337
PO4.5:
7 residues within 4Å:
Chain B:
H.8
,
G.9
,
F.108
,
N.157
,
R.323
,
Y.328
,
R.337
10
PLIP interactions
:
10 interactions with chain B
Hydrogen bonds:
B:G.9
,
B:S.30
,
B:N.157
Water bridges:
B:H.8
,
B:R.323
,
B:R.323
,
B:Y.328
Salt bridges:
B:H.8
,
B:R.323
,
B:R.337
2 x
PLP
:
PYRIDOXAL-5'-PHOSPHATE
(Covalent)
PLP.2:
16 residues within 4Å:
Chain A:
G.84
,
E.85
,
T.86
,
I.89
,
F.108
,
C.153
,
N.157
,
D.185
,
A.187
,
F.188
,
S.213
,
T.215
,
K.216
,
R.224
,
L.225
Chain B:
Y.56
15
PLIP interactions
:
14 interactions with chain A
,
1 interactions with chain B
Hydrophobic interactions:
A:F.108
,
A:N.157
,
A:A.187
,
A:K.216
Hydrogen bonds:
A:E.85
,
A:T.86
,
A:T.86
,
A:N.157
,
A:S.213
,
A:T.215
,
A:T.215
,
B:Y.56
Salt bridges:
A:K.216
,
A:R.224
pi-Stacking:
A:F.108
PLP.6:
16 residues within 4Å:
Chain A:
Y.56
Chain B:
G.84
,
E.85
,
T.86
,
I.89
,
F.108
,
C.153
,
N.157
,
D.185
,
A.187
,
F.188
,
S.213
,
T.215
,
K.216
,
R.224
,
L.225
14
PLIP interactions
:
14 interactions with chain B
Hydrophobic interactions:
B:F.108
,
B:N.157
,
B:A.187
,
B:K.216
Hydrogen bonds:
B:E.85
,
B:T.86
,
B:N.157
,
B:S.213
,
B:T.215
,
B:T.215
,
B:K.216
Salt bridges:
B:K.216
,
B:R.224
pi-Stacking:
B:F.108
4 x
EDO
:
1,2-ETHANEDIOL
(Non-functional Binders)
EDO.3:
4 residues within 4Å:
Chain A:
D.190
,
R.212
,
S.213
,
Y.227
4
PLIP interactions
:
4 interactions with chain A
Hydrogen bonds:
A:R.212
,
A:Y.227
Water bridges:
A:E.186
,
A:D.190
EDO.4:
5 residues within 4Å:
Chain A:
V.104
,
L.152
,
C.153
,
N.156
,
P.163
3
PLIP interactions
:
3 interactions with chain A
Hydrogen bonds:
A:C.153
Water bridges:
A:N.156
,
A:N.156
EDO.7:
4 residues within 4Å:
Chain B:
D.190
,
R.212
,
S.213
,
Y.227
6
PLIP interactions
:
6 interactions with chain B
Hydrogen bonds:
B:D.190
,
B:R.212
,
B:Y.227
,
B:Y.227
Water bridges:
B:E.186
,
B:D.190
EDO.8:
5 residues within 4Å:
Chain B:
V.104
,
L.152
,
C.153
,
N.156
,
P.163
3
PLIP interactions
:
3 interactions with chain B
Hydrogen bonds:
B:C.153
Water bridges:
B:N.156
,
B:N.156
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Cheong, C.G. et al., Three-dimensional structure of the L-threonine-O-3-phosphate decarboxylase (CobD) enzyme from Salmonella enterica. Biochemistry (2002)
Release Date
2002-05-01
Peptides
L-threonine-O-3-phosphate decarboxylase:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
A
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L-threonine-O-3-phosphate decarboxylase
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