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SMTL ID : 4leq.1
tRNA guanine transglycosylase (TGT) in complex with Furanoside-Based lin-Benzoguanine 1
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 1.40 Å
Oligo State
homo-dimer
Ligands
2 x
1WK
:
methyl 6-[6-amino-2-(methylamino)-8-oxo-7,8-dihydro-1H-imidazo[4,5-g]quinazolin-4-yl]-5,6-dideoxy-beta-D-ribo-hexofuranoside
(Non-covalent)
1WK.1:
19 residues within 4Å:
Chain A:
V.47
,
T.49
,
L.70
,
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
,
M.262
,
G.263
,
D.282
17
PLIP interactions
:
17 interactions with chain A
Hydrophobic interactions:
A:Y.108
,
A:Y.108
Hydrogen bonds:
A:N.72
,
A:S.105
,
A:Y.108
,
A:Q.109
,
A:Q.205
,
A:G.232
,
A:L.233
,
A:A.234
,
A:D.282
Water bridges:
A:G.106
,
A:Q.109
,
A:L.233
Salt bridges:
A:H.75
,
A:D.104
,
A:D.158
1WK.6:
19 residues within 4Å:
Chain B:
V.47
,
T.49
,
L.70
,
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
,
M.262
,
G.263
,
D.282
18
PLIP interactions
:
18 interactions with chain B
Hydrophobic interactions:
B:Y.108
,
B:Y.108
Hydrogen bonds:
B:N.72
,
B:S.105
,
B:Y.108
,
B:Q.109
,
B:Q.205
,
B:G.232
,
B:L.233
,
B:A.234
,
B:D.282
Water bridges:
B:G.106
,
B:Y.108
,
B:Q.109
,
B:L.233
Salt bridges:
B:H.75
,
B:D.104
,
B:D.158
4 x
GOL
:
GLYCEROL
(Non-functional Binders)
GOL.2:
6 residues within 4Å:
Chain A:
P.58
,
E.59
,
G.96
,
W.97
,
D.98
,
R.99
6
PLIP interactions
:
6 interactions with chain A
Hydrogen bonds:
A:P.58
,
A:D.98
,
A:D.98
,
A:R.99
Water bridges:
A:E.59
,
A:R.99
GOL.3:
7 residues within 4Å:
Chain A:
W.298
,
E.319
,
K.362
,
F.375
,
D.378
,
F.379
,
R.382
5
PLIP interactions
:
5 interactions with chain A
Hydrogen bonds:
A:E.319
,
A:K.362
,
A:D.378
,
A:R.382
Water bridges:
A:E.319
GOL.7:
6 residues within 4Å:
Chain B:
P.58
,
E.59
,
G.96
,
W.97
,
D.98
,
R.99
6
PLIP interactions
:
6 interactions with chain B
Hydrogen bonds:
B:P.58
,
B:D.98
,
B:D.98
,
B:R.99
Water bridges:
B:E.59
,
B:R.99
GOL.8:
7 residues within 4Å:
Chain B:
W.298
,
E.319
,
K.362
,
F.375
,
D.378
,
F.379
,
R.382
5
PLIP interactions
:
5 interactions with chain B
Hydrogen bonds:
B:E.319
,
B:K.362
,
B:D.378
,
B:R.382
Water bridges:
B:K.362
2 x
ZN
:
ZINC ION
(Non-covalent)
ZN.4:
4 residues within 4Å:
Chain A:
C.320
,
C.322
,
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.9:
4 residues within 4Å:
Chain B:
C.320
,
C.322
,
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
CL
:
CHLORIDE ION
(Non-functional Binders)
CL.5:
4 residues within 4Å:
Chain A:
V.284
,
T.287
,
R.288
,
R.291
Ligand excluded by PLIP
CL.10:
4 residues within 4Å:
Chain B:
V.284
,
T.287
,
R.288
,
R.291
Ligand excluded by PLIP
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Barandun, L.J. et al., Replacement of Water Molecules in a Phosphate Binding Site by Furanoside-Appended lin-Benzoguanine Ligands of tRNA-Guanine Transglycosylase (TGT). Chemistry (2015)
Release Date
2014-12-24
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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