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SMTL ID : 5ayt.1
Crystal structure of transthyretin in complex with L6
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 1.40 Å
Oligo State
homo-tetramer
Ligands
4 x
L6Y
:
2-oxidanyl-6-(phenylcarbonyl)benzo[de]isoquinoline-1,3-dione
(Non-covalent)
L6Y.1:
14 residues within 4Å:
Chain A:
K.47
,
L.49
,
A.140
,
L.142
,
T.151
,
V.153
Chain C:
K.47
,
L.49
,
A.140
,
A.141
,
L.142
,
S.149
,
T.151
Ligands:
L6Y.3
10
PLIP interactions
:
6 interactions with chain A
,
4 interactions with chain C
Hydrophobic interactions:
A:L.49
,
A:A.140
,
A:L.142
,
A:V.153
,
C:L.49
,
C:A.140
,
C:L.142
Hydrogen bonds:
A:K.47
,
C:K.47
Water bridges:
A:T.151
L6Y.2:
14 residues within 4Å:
Chain B:
K.47
,
L.49
,
A.140
,
L.142
,
T.151
,
V.153
Chain D:
K.47
,
L.49
,
A.140
,
A.141
,
L.142
,
S.149
,
T.151
Ligands:
L6Y.4
13
PLIP interactions
:
7 interactions with chain B
,
6 interactions with chain D
Hydrophobic interactions:
B:L.49
,
B:A.140
,
B:L.142
,
B:V.153
,
D:L.49
,
D:L.49
,
D:A.140
,
D:A.140
,
D:L.142
Hydrogen bonds:
B:K.47
,
B:K.47
,
B:T.151
,
D:K.47
L6Y.3:
14 residues within 4Å:
Chain A:
K.47
,
L.49
,
A.140
,
A.141
,
L.142
,
S.149
,
T.151
Chain C:
K.47
,
L.49
,
A.140
,
L.142
,
T.151
,
V.153
Ligands:
L6Y.1
10
PLIP interactions
:
4 interactions with chain A
,
6 interactions with chain C
Hydrophobic interactions:
A:L.49
,
A:A.140
,
A:L.142
,
C:L.49
,
C:A.140
,
C:L.142
,
C:V.153
Hydrogen bonds:
A:K.47
,
C:K.47
Water bridges:
C:T.151
L6Y.4:
14 residues within 4Å:
Chain B:
K.47
,
L.49
,
A.140
,
A.141
,
L.142
,
S.149
,
T.151
Chain D:
K.47
,
L.49
,
A.140
,
L.142
,
T.151
,
V.153
Ligands:
L6Y.2
13
PLIP interactions
:
6 interactions with chain B
,
7 interactions with chain D
Hydrophobic interactions:
B:L.49
,
B:L.49
,
B:A.140
,
B:A.140
,
B:L.142
,
D:L.49
,
D:A.140
,
D:L.142
,
D:V.153
Hydrogen bonds:
B:K.47
,
D:K.47
,
D:K.47
,
D:T.151
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Yokoyama, T. et al., Structural stabilization of transthyretin by a new compound, 6-benzoyl-2-hydroxy-1H-benzo[de]isoquinoline-1,3(2H)-dione. J. Pharmacol. Sci. (2015)
Release Date
2016-01-20
Peptides
Transthyretin:
A
B
C
D
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
C
A
D
B
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Transthyretin
Toggle Identical (ABCD)
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