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SMTL ID : 5de1.1
Crystal structure of human IDH1 in complex with GSK321A
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 2.25 Å
Oligo State
homo-dimer
Ligands
2 x
NAP
:
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
(Non-covalent)
NAP.1:
18 residues within 4Å:
Chain A:
K.71
,
T.74
,
I.75
,
T.76
,
R.81
,
N.95
,
G.288
,
E.305
,
H.308
,
G.309
,
T.310
,
V.311
,
T.312
,
R.313
,
H.314
,
T.326
,
N.327
,
D.374
18
PLIP interactions
:
18 interactions with chain A
Hydrogen bonds:
A:K.71
,
A:T.74
,
A:T.74
,
A:T.76
,
A:T.76
,
A:T.76
,
A:R.81
,
A:R.81
,
A:N.95
,
A:G.309
,
A:G.309
,
A:T.310
,
A:V.311
,
A:N.327
,
A:N.327
Water bridges:
A:A.330
Salt bridges:
A:R.313
,
A:H.314
NAP.3:
19 residues within 4Å:
Chain A:
K.259
Chain B:
K.71
,
A.73
,
T.74
,
I.75
,
T.76
,
R.81
,
N.95
,
G.288
,
E.305
,
H.308
,
G.309
,
T.310
,
V.311
,
T.312
,
R.313
,
H.314
,
T.326
,
N.327
20
PLIP interactions
:
19 interactions with chain B
,
1 interactions with chain A
Hydrogen bonds:
B:T.74
,
B:T.74
,
B:T.76
,
B:T.76
,
B:R.81
,
B:R.81
,
B:N.95
,
B:G.309
,
B:G.309
,
B:T.310
,
B:V.311
,
B:N.327
,
B:N.327
Water bridges:
B:T.74
,
B:E.305
,
B:E.305
,
B:A.330
Salt bridges:
B:R.313
,
B:H.314
,
A:K.259
2 x
59D
:
(7R)-1-(4-fluorobenzyl)-N-{3-[(1S)-1-hydroxyethyl]phenyl}-7-methyl-5-(1H-pyrrol-2-ylcarbonyl)-4,5,6,7-tetrahydro-1H-pyrazolo[4,3-c]pyridine-3-carboxamide
(Non-covalent)
59D.2:
19 residues within 4Å:
Chain A:
A.110
,
I.112
,
P.117
,
R.118
,
L.119
,
W.123
,
K.125
,
P.126
,
I.127
,
I.129
,
W.266
,
V.280
,
A.281
,
G.283
,
Y.284
,
M.290
,
C.378
Chain B:
L.119
Ligands:
59D.4
16
PLIP interactions
:
15 interactions with chain A
,
1 interactions with chain B
Hydrophobic interactions:
A:A.110
,
A:I.112
,
A:L.119
,
A:W.123
,
A:I.127
,
A:I.129
,
A:W.266
,
A:V.280
,
B:L.119
Hydrogen bonds:
A:L.119
,
A:K.125
,
A:I.127
,
A:V.280
,
A:Y.284
pi-Stacking:
A:W.123
,
A:Y.284
59D.4:
18 residues within 4Å:
Chain A:
L.119
Chain B:
A.110
,
I.112
,
P.117
,
R.118
,
L.119
,
W.123
,
K.125
,
P.126
,
I.127
,
I.129
,
W.266
,
V.280
,
A.281
,
G.283
,
Y.284
,
M.290
Ligands:
59D.2
18
PLIP interactions
:
17 interactions with chain B
,
1 interactions with chain A
Hydrophobic interactions:
B:I.112
,
B:R.118
,
B:L.119
,
B:L.119
,
B:W.123
,
B:I.127
,
B:I.129
,
B:W.266
,
B:V.280
,
B:V.280
,
A:L.119
Hydrogen bonds:
B:L.119
,
B:K.125
,
B:I.127
,
B:V.280
,
B:Y.284
pi-Stacking:
B:W.123
,
B:Y.284
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Okoye-Okafor, U.C. et al., New IDH1 mutant inhibitors for treatment of acute myeloid leukemia. Nat.Chem.Biol. (2015)
Release Date
2015-10-07
Peptides
Isocitrate dehydrogenase [NADP] cytoplasmic:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
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Isocitrate dehydrogenase [NADP] cytoplasmic
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