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SMTL ID : 6hhx.1
Structure of T. thermophilus AspRS in Complex with 5'-O-(N-(L-aspartyl)-sulfamoyl)cytidine
Coordinates
PDB Format
Method
X-RAY DIFFRACTION 2.10 Å
Oligo State
homo-dimer
Ligands
2 x
G5N
:
5'-O-(N-(L-aspartyl)-sulfamoyl)cytidine
(Non-covalent)
G5N.1:
18 residues within 4Å:
Chain A:
S.200
,
Q.202
,
K.205
,
R.224
,
F.236
,
Q.238
,
H.443
,
H.444
,
E.477
,
V.478
,
G.479
,
G.480
,
G.481
,
R.484
,
G.525
,
I.526
,
A.527
,
G.529
16
PLIP interactions
:
16 interactions with chain A
Hydrophobic interactions:
A:A.527
Hydrogen bonds:
A:S.200
,
A:Q.202
,
A:R.224
,
A:R.232
,
A:Q.238
,
A:E.477
,
A:G.529
Water bridges:
A:R.532
,
A:R.532
Salt bridges:
A:K.205
,
A:R.224
,
A:H.443
,
A:H.444
,
A:R.484
pi-Stacking:
A:F.236
G5N.2:
20 residues within 4Å:
Chain B:
E.178
,
S.200
,
Q.202
,
K.205
,
R.224
,
R.232
,
F.236
,
Q.238
,
H.444
,
E.477
,
V.478
,
G.479
,
G.480
,
G.481
,
R.484
,
G.525
,
I.526
,
A.527
,
G.529
,
R.532
17
PLIP interactions
:
17 interactions with chain B
Hydrophobic interactions:
B:A.527
Hydrogen bonds:
B:E.178
,
B:E.178
,
B:S.200
,
B:R.224
,
B:Q.238
,
B:E.477
,
B:G.529
,
B:R.532
,
B:R.532
Water bridges:
B:Q.233
Salt bridges:
B:K.205
,
B:R.224
,
B:H.444
,
B:R.484
pi-Stacking:
B:F.236
pi-Cation interactions:
B:R.532
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Pang, L. et al., Structural Insights into the Binding of Natural Pyrimidine-Based Inhibitors of Class II Aminoacyl-tRNA Synthetases. Acs Chem.Biol. (2020)
Release Date
2019-12-18
Peptides
Aspartate--tRNA(Asp) ligase:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
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Aspartate--tRNA(Asp) ligase
Related Entries With Identical Sequence
6hhv.1
|
6hhw.1
|
6sjc.1
|
7ap4.1
Cartoon
Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
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