SMTL ID : 5n5q.1

Human TTR altered conformation from soaking in iron chloride.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.53 Å

Oligo State

homo-tetramer

Ligands

6 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 5 residues within 4Å: Chain A: I.17, N.18, V.19, S.68, Y.69 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:N.18, A:Y.69 Hydrogen bonds: A:N.18 Water bridges: A:A.20 Salt bridges: A:K.39 ACT.4: 5 residues within 4Å: Chain B: F.35, A.36, L.49, T.50, E.54 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:F.35, B:E.54 Hydrogen bonds: B:F.35, B:T.50 Water bridges: B:T.51 ACT.5: 2 residues within 4Å: Chain B: W.32, K.61 2 PLIP interactions: 2 interactions with chain B Water bridges: B:K.61 Salt bridges: B:K.61 ACT.10: 5 residues within 4Å: Chain C: I.17, N.18, V.19, S.68, Y.69 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:N.18, C:Y.69 Hydrogen bonds: C:N.18 Water bridges: C:A.20 Salt bridges: C:K.39 ACT.13: 5 residues within 4Å: Chain D: F.35, A.36, L.49, T.50, E.54 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:F.35, D:E.54 Hydrogen bonds: D:F.35, D:T.50 Water bridges: D:T.51 ACT.14: 2 residues within 4Å: Chain D: W.32, K.61 2 PLIP interactions: 2 interactions with chain D Water bridges: D:K.61 Salt bridges: D:K.61

2 x FFE: [bis(oxidanyl)-[tetrakis(oxidanyl)ferriooxy]ferrio]oxy-pentakis(oxidanyl)iron(Non-covalent)

FFE.2: 1 residues within 4Å: Chain A: E.42 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.42, A:E.42 Metal complexes: A:E.42, A:E.42, A:E.42 FFE.11: 1 residues within 4Å: Chain C: E.42 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:E.42, C:E.42 Metal complexes: C:E.42, C:E.42, C:E.42

10 x FE: FE (III) ION(Non-covalent)

FE.3: 1 residues within 4Å: Chain A: E.45 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.45, H2O.1, H2O.5 FE.6: 3 residues within 4Å: Chain A: F.86, T.87 Chain B: H.79 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.79 FE.7: 2 residues within 4Å: Chain B: E.42 Ligands: FE.9 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.42, H2O.4 FE.8: 1 residues within 4Å: Chain B: E.45 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:E.45, H2O.3, H2O.3, H2O.4, H2O.4 FE.9: 2 residues within 4Å: Chain B: E.42 Ligands: FE.7 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.42, B:E.42, H2O.2 FE.12: 1 residues within 4Å: Chain C: E.45 3 PLIP interactions: 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:E.45, H2O.1, H2O.5 FE.15: 3 residues within 4Å: Chain C: F.86, T.87 Chain D: H.79 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:H.79 FE.16: 2 residues within 4Å: Chain D: E.42 Ligands: FE.18 2 PLIP interactions: 1 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.42, H2O.8 FE.17: 1 residues within 4Å: Chain D: E.45 5 PLIP interactions: 1 interactions with chain D, 4 Ligand-Water interactions Metal complexes: D:E.45, H2O.7, H2O.7, H2O.8, H2O.8 FE.18: 2 residues within 4Å: Chain D: E.42 Ligands: FE.16 3 PLIP interactions: 2 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.42, D:E.42, H2O.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ciccone, L. et al., Copper mediated amyloid-beta binding to Transthyretin. Sci Rep (2018)

Release Date

2018-03-07

Peptides

Transthyretin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Transthyretin

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