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SMTL ID : 4s1h.1
Pyridoxal kinase of Entamoeba histolytica with ADP
Coordinates
PDB Format
Method
X-RAY DIFFRACTION 1.60 Å
Oligo State
homo-dimer
Ligands
2 x
ADP
:
ADENOSINE-5'-DIPHOSPHATE
(Non-covalent)
ADP.1:
19 residues within 4Å:
Chain A:
D.116
,
N.143
,
T.179
,
S.180
,
I.187
,
I.206
,
P.207
,
R.208
,
I.209
,
G.211
,
F.213
,
V.216
,
G.217
,
I.242
,
L.245
,
Q.246
,
L.249
Ligands:
MG.2
,
MG.3
18
PLIP interactions
:
18 interactions with chain A
Hydrogen bonds:
A:N.143
,
A:T.179
,
A:T.179
,
A:S.180
,
A:R.208
,
A:I.209
,
A:I.209
,
A:G.217
Water bridges:
A:G.115
,
A:D.116
,
A:D.116
,
A:D.116
,
A:D.116
,
A:N.143
,
A:E.146
,
A:F.213
,
A:D.218
,
A:D.218
ADP.5:
20 residues within 4Å:
Chain B:
D.116
,
N.143
,
T.179
,
S.180
,
I.187
,
I.206
,
P.207
,
R.208
,
I.209
,
G.211
,
F.213
,
V.216
,
G.217
,
L.220
,
I.242
,
L.245
,
Q.246
,
L.249
Ligands:
MG.4
,
MG.6
20
PLIP interactions
:
20 interactions with chain B
Hydrogen bonds:
B:N.143
,
B:T.179
,
B:T.179
,
B:S.180
,
B:S.180
,
B:I.209
,
B:I.209
,
B:V.216
,
B:G.217
,
B:Q.246
Water bridges:
B:D.116
,
B:Y.121
,
B:Y.121
,
B:Y.121
,
B:N.143
,
B:R.208
,
B:R.208
,
B:F.213
,
B:D.218
,
B:D.218
4 x
MG
:
MAGNESIUM ION
(Non-covalent)
MG.2:
3 residues within 4Å:
Chain A:
D.111
,
T.141
Ligands:
ADP.1
6
PLIP interactions
:
2 interactions with chain A
,
4 Ligand-Water interactions
Metal complexes:
A:D.111
,
A:T.141
,
H
2
O.1
,
H
2
O.1
,
H
2
O.6
,
H
2
O.6
MG.3:
2 residues within 4Å:
Chain A:
D.116
Ligands:
ADP.1
3
PLIP interactions
:
1 interactions with chain A
,
2 Ligand-Water interactions
Metal complexes:
A:D.116
,
H
2
O.1
,
H
2
O.4
MG.4:
3 residues within 4Å:
Chain B:
D.111
,
T.141
Ligands:
ADP.5
6
PLIP interactions
:
2 interactions with chain B
,
4 Ligand-Water interactions
Metal complexes:
B:D.111
,
B:T.141
,
H
2
O.10
,
H
2
O.12
,
H
2
O.12
,
H
2
O.12
MG.6:
2 residues within 4Å:
Chain B:
D.116
Ligands:
ADP.5
4
PLIP interactions
:
1 interactions with chain B
,
3 Ligand-Water interactions
Metal complexes:
B:D.116
,
H
2
O.6
,
H
2
O.6
,
H
2
O.8
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Tarique, K.F. et al., Characterization and functional insights into the Entamoeba histolytica pyridoxal kinase, an enzyme essential for its survival. J.Struct.Biol. (2020)
Release Date
2015-01-28
Peptides
Pyridoxal kinase:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
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Pyridoxal kinase
Related Entries With Identical Sequence
4s1i.1
|
4s1m.1
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Tube
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