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SMTL ID : 6ygs.1
tRNA-guanine Transglycosylase (TGT) in co-crystallized complex with 6-amino-2-(methylamino)-4-(4-(trifluoromethyl)phenethyl)-3,7-dihydro-8H-imidazo[4,5-g]quinazolin-8-one
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 1.40 Å
Oligo State
homo-dimer
Ligands
2 x
ZN
:
ZINC ION
(Non-covalent)
ZN.1:
5 residues within 4Å:
Chain A:
C.320
,
C.322
,
V.324
,
C.325
,
H.351
4
PLIP interactions
:
4 interactions with chain A
Metal complexes:
A:C.320
,
A:C.322
,
A:C.325
,
A:H.351
ZN.4:
5 residues within 4Å:
Chain B:
C.320
,
C.322
,
V.324
,
C.325
,
H.351
4
PLIP interactions
:
4 interactions with chain B
Metal complexes:
B:C.320
,
B:C.322
,
B:C.325
,
B:H.351
2 x
OQQ
:
6-amino-2-(methylamino)-4-(4-(trifluoromethyl)phenethyl)-3,7-dihydro-8H-imidazo[4,5-g]quinazolin-8-one
(Non-covalent)
OQQ.2:
21 residues within 4Å:
Chain A:
V.47
,
L.70
,
G.71
,
N.72
,
D.104
,
S.105
,
Y.108
,
Q.109
,
D.158
,
C.160
,
I.203
,
Q.205
,
G.231
,
G.232
,
L.233
,
A.234
,
V.235
,
M.262
,
G.263
,
D.282
,
V.284
18
PLIP interactions
:
18 interactions with chain A
Hydrophobic interactions:
A:L.70
,
A:D.104
,
A:Y.108
,
A:Y.108
,
A:M.262
,
A:V.284
Hydrogen bonds:
A:S.105
,
A:Q.205
,
A:G.232
,
A:L.233
,
A:A.234
Water bridges:
A:Y.108
,
A:D.158
,
A:C.160
Salt bridges:
A:D.104
,
A:D.158
pi-Stacking:
A:Y.108
,
A:Y.108
OQQ.5:
21 residues within 4Å:
Chain B:
V.47
,
L.70
,
G.71
,
N.72
,
D.104
,
S.105
,
Y.108
,
Q.109
,
D.158
,
C.160
,
I.203
,
Q.205
,
G.231
,
G.232
,
L.233
,
A.234
,
V.235
,
M.262
,
G.263
,
D.282
,
V.284
18
PLIP interactions
:
18 interactions with chain B
Hydrophobic interactions:
B:L.70
,
B:D.104
,
B:Y.108
,
B:Y.108
,
B:M.262
,
B:V.284
Hydrogen bonds:
B:S.105
,
B:Q.205
,
B:G.232
,
B:L.233
,
B:A.234
Water bridges:
B:Y.108
,
B:D.158
,
B:C.160
Salt bridges:
B:D.104
,
B:D.158
pi-Stacking:
B:Y.108
,
B:Y.108
2 x
GOL
:
GLYCEROL
(Non-functional Binders)
GOL.3:
7 residues within 4Å:
Chain A:
W.298
,
E.319
,
K.362
,
F.375
,
D.378
,
F.379
,
R.382
3
PLIP interactions
:
3 interactions with chain A
Hydrogen bonds:
A:E.319
,
A:K.362
,
A:D.378
GOL.6:
7 residues within 4Å:
Chain B:
W.298
,
E.319
,
K.362
,
F.375
,
D.378
,
F.379
,
R.382
3
PLIP interactions
:
3 interactions with chain B
Hydrogen bonds:
B:E.319
,
B:K.362
,
B:D.378
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Nguyen, A. et al., Co-crystallization and 19F NMR reveal dimer disturbing inhibitors and conformational changes at dimer contacts. To Be Published
Release Date
2020-04-08
Peptides
Queuine tRNA-ribosyltransferase:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
A
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Queuine tRNA-ribosyltransferase
Toggle Identical (AB)
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