SMTL ID : 3ipb.1

Human Transthyretin (TTR) complexed with a palindromic bivalent amyloid inhibitor (11 carbon linker).

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-tetramer

Ligands

4 x JZD: 2,2'-{undecane-1,11-diylbis[oxy(3,5-dichlorobenzene-4,1-diyl)imino]}dibenzoic acid(Non-covalent)

JZD.1: 28 residues within 4Å: Chain A: K.15, L.17, A.108, L.110, S.117, T.118, T.119 Chain B: K.15, L.17, L.110, S.117, V.121 Chain C: K.15, L.17, A.108, L.110, S.117, T.118, T.119 Chain D: K.15, L.17, E.54, A.108, L.110, S.117 Ligands: JZD.2, JZD.3, JZD.4 12 PLIP interactions: 2 interactions with chain D, 3 interactions with chain A, 3 interactions with chain B, 4 interactions with chain C Hydrophobic interactions: D:K.15, D:E.54, A:A.108, B:L.110, C:K.15, C:L.17, C:A.108 Hydrogen bonds: A:S.117, B:K.15, C:S.117 Salt bridges: A:K.15, B:K.15 JZD.2: 28 residues within 4Å: Chain A: K.15, L.17, L.110, S.117 Chain B: K.15, L.17, A.108, L.110, S.117, T.118, T.119, V.121 Chain C: K.15, L.17, E.54, T.106, A.108, L.110, S.117 Chain D: K.15, L.17, A.108, L.110, S.117, T.119 Ligands: JZD.1, JZD.3, JZD.4 13 PLIP interactions: 3 interactions with chain D, 4 interactions with chain B, 3 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: D:L.17, B:A.108, B:V.121, A:L.110, C:L.17 Hydrogen bonds: D:S.117, B:S.117, A:K.15 Halogen bonds: D:S.117 Salt bridges: B:K.15, A:K.15, C:K.15 pi-Cation interactions: C:K.15 JZD.3: 28 residues within 4Å: Chain A: K.15, L.17, A.108, L.110, S.117, T.118, T.119 Chain B: K.15, L.17, E.54, A.108, L.110, S.117 Chain C: K.15, L.17, A.108, L.110, S.117, T.118, T.119 Chain D: K.15, L.17, L.110, S.117, V.121 Ligands: JZD.1, JZD.2, JZD.4 12 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B, 3 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: A:K.15, A:L.17, A:A.108, B:K.15, B:E.54, D:L.110, C:A.108 Hydrogen bonds: A:S.117, D:K.15, C:S.117 Salt bridges: D:K.15, C:K.15 JZD.4: 28 residues within 4Å: Chain A: K.15, L.17, E.54, T.106, A.108, L.110, S.117 Chain B: K.15, L.17, A.108, L.110, S.117, T.119 Chain C: K.15, L.17, L.110, S.117 Chain D: K.15, L.17, A.108, L.110, S.117, T.118, T.119, V.121 Ligands: JZD.1, JZD.2, JZD.3 13 PLIP interactions: 4 interactions with chain D, 3 interactions with chain B, 3 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: D:A.108, D:V.121, B:L.17, A:L.17, C:L.110 Hydrogen bonds: D:S.117, B:S.117, C:K.15 Salt bridges: D:K.15, A:K.15, C:K.15 Halogen bonds: B:S.117 pi-Cation interactions: A:K.15

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kolstoe, S.E. et al., Trapping of palindromic ligands within native transthyretin prevents amyloid formation. Proc.Natl.Acad.Sci.USA (2010)

Release Date

2010-11-17

Peptides

Transthyretin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Transthyretin

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