SMTL ID : 8hh0.1

Peroxiredoxin from Thermococcus kodakaraensis (TkPrx) F42C/C46S/C205S/C211S mutant modified with 2-(bromoacetyl)naphthalene (Naph@TkPrx*F42C)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

homo-tetramer

Ligands

4 x FL3: 1-naphthalen-2-ylethanone(Covalent)

FL3.1: 8 residues within 4Å: Chain A: D.41, C.42, F.76, S.77 Chain C: C.42 Chain D: W.208, W.209 Ligands: FL3.3 5 PLIP interactions: 4 interactions with chain D, 1 interactions with chain A Hydrophobic interactions: D:W.208, D:W.209, D:W.209, A:F.76 pi-Stacking: D:W.208 FL3.2: 5 residues within 4Å: Chain A: W.209 Chain B: C.42, K.80, W.81, W.84 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:K.80, B:K.80, B:W.81 pi-Cation interactions: B:K.80 FL3.3: 8 residues within 4Å: Chain A: C.42 Chain B: W.208, W.209 Chain C: D.41, C.42, F.76, S.77 Ligands: FL3.1 5 PLIP interactions: 1 interactions with chain C, 4 interactions with chain B Hydrophobic interactions: C:F.76, B:W.208, B:W.209, B:W.209 pi-Stacking: B:W.208 FL3.4: 5 residues within 4Å: Chain C: W.209 Chain D: C.42, K.80, W.81, W.84 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:K.80, D:K.80, D:W.81 pi-Cation interactions: D:K.80

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Himiyama, T. et al., Unnaturally Distorted Hexagonal Protein Ring Alternatingly Reorganized from Two Distinct Chemically Modified Proteins. Bioconjug.Chem. (2023)

Release Date

2023-03-22

Peptides

Peroxiredoxin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Peroxiredoxin

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