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SMTL ID : 2ewg.1
(3 other biounits)
T. brucei Farnesyl Diphosphate Synthase Complexed with Minodronate
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 2.48 Å
Oligo State
homo-dimer
Ligands
6 x
MG
:
MAGNESIUM ION
(Non-covalent)
MG.1:
5 residues within 4Å:
Chain A:
D.126
,
D.130
,
R.135
Ligands:
MG.2
,
M0N.4
4
PLIP interactions
:
2 interactions with chain A
,
2 Ligand-Water interactions
Metal complexes:
A:D.126
,
A:D.130
,
H
2
O.1
,
H
2
O.7
MG.2:
5 residues within 4Å:
Chain A:
D.126
,
D.130
,
Q.195
Ligands:
MG.1
,
M0N.4
5
PLIP interactions
:
4 interactions with chain A
,
1 Ligand-Water interactions
Metal complexes:
A:D.126
,
A:D.126
,
A:D.130
,
A:D.130
,
H
2
O.1
MG.3:
4 residues within 4Å:
Chain A:
D.278
,
D.282
,
D.296
Ligands:
M0N.4
4
PLIP interactions
:
1 interactions with chain A
,
3 Ligand-Water interactions
Metal complexes:
A:D.278
,
H
2
O.1
,
H
2
O.1
,
H
2
O.3
MG.7:
5 residues within 4Å:
Chain B:
D.126
,
D.130
,
S.132
Ligands:
MG.9
,
M0N.10
4
PLIP interactions
:
2 interactions with chain B
,
2 Ligand-Water interactions
Metal complexes:
B:D.126
,
B:D.130
,
H
2
O.7
,
H
2
O.7
MG.8:
4 residues within 4Å:
Chain B:
D.278
,
D.282
,
D.296
Ligands:
M0N.10
4
PLIP interactions
:
1 interactions with chain B
,
2 Ligand-Water interactions
,
1 Ligand-Ligand interactions
Metal complexes:
B:D.278
,
H
2
O.7
,
H
2
O.13
,
M0N.10
MG.9:
5 residues within 4Å:
Chain B:
D.126
,
D.130
,
D.198
Ligands:
MG.7
,
M0N.10
5
PLIP interactions
:
3 interactions with chain B
,
2 Ligand-Water interactions
Metal complexes:
B:D.126
,
B:D.130
,
B:D.130
,
H
2
O.7
,
H
2
O.7
2 x
M0N
:
(1-HYDROXY-2-IMIDAZO[1,2-A]PYRIDIN-3-YLETHANE-1,1-DIYL)BIS(PHOSPHONIC ACID)
(Non-covalent)
M0N.4:
15 residues within 4Å:
Chain A:
Y.122
,
D.126
,
D.130
,
R.135
,
T.191
,
Q.195
,
K.235
,
T.236
,
Y.239
,
Q.275
,
D.278
,
K.292
Ligands:
MG.1
,
MG.2
,
MG.3
18
PLIP interactions
:
18 interactions with chain A
Hydrophobic interactions:
A:Y.122
,
A:D.126
,
A:T.191
,
A:Q.195
,
A:Y.239
Hydrogen bonds:
A:D.126
,
A:D.130
,
A:R.135
,
A:R.135
,
A:K.235
,
A:Q.275
,
A:K.292
Water bridges:
A:S.132
,
A:S.132
,
A:S.132
,
A:T.236
,
A:T.236
,
A:D.296
M0N.10:
14 residues within 4Å:
Chain B:
Y.122
,
D.126
,
D.130
,
R.135
,
T.191
,
Q.195
,
K.235
,
T.236
,
Q.275
,
D.278
,
K.292
Ligands:
MG.7
,
MG.8
,
MG.9
17
PLIP interactions
:
17 interactions with chain B
Hydrophobic interactions:
B:Y.122
,
B:D.126
,
B:T.191
,
B:Q.195
Hydrogen bonds:
B:D.126
,
B:R.135
,
B:R.135
,
B:K.235
,
B:K.235
,
B:Q.275
,
B:Q.275
,
B:D.278
Water bridges:
B:D.126
,
B:D.127
,
B:D.130
,
B:S.132
,
B:S.132
3 x
PGO
:
S-1,2-PROPANEDIOL
(Non-covalent)
(Non-functional Binders)
PGO.5:
2 residues within 4Å:
Chain A:
R.103
,
R.174
2
PLIP interactions
:
2 interactions with chain A
Hydrogen bonds:
A:A.99
,
A:R.174
PGO.6:
0 residues within 4Å:
(No contacts)
No protein-ligand interaction detected (PLIP)
PGO.11:
1 residues within 4Å:
Chain B:
H.106
2
PLIP interactions
:
2 interactions with chain B
Hydrogen bonds:
B:H.106
Water bridges:
B:R.174
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Mao, J. et al., Solid-state NMR, crystallographic, and computational investigation of bisphosphonates and farnesyl diphosphate synthase-bisphosphonate complexes. J.Am.Chem.Soc. (2006)
Release Date
2006-10-31
Peptides
farnesyl pyrophosphate synthase:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
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farnesyl pyrophosphate synthase
Toggle Identical (AB)
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