SMTL ID : 8os1.2 (1 other biounit)

X-ray structure of the Peroxisomal Targeting Signal 1 (PTS1) of Trypanosoma Cruzi PEX5 in complex with the PTS1 peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x TYR- GLN- SER- LYS- LEU: Peroxisomal targeting signal 1 (PTS1)

TYR-GLN-SER-LYS-LEU.1: 22 residues within 4Å: Chain A: E.64, V.92, T.95, N.96, H.98, N.179, H.203, N.206, K.207, A.210, T.211, A.213, N.214, Y.225, R.237, Y.240, N.241, V.244, S.247, N.248, L.287, M.290 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:V.92, A:T.95, A:N.179, A:K.207, A:Y.240, A:V.244, A:L.287 Hydrogen bonds: A:N.96, A:N.96, A:N.96, A:N.206, A:N.214, A:N.214, A:Y.225, A:Y.225, A:N.241, A:N.241, A:N.248, A:N.248 Water bridges: A:N.96, A:R.237, A:R.237, A:Y.240 Salt bridges: A:H.203, A:R.237

7 x EDO: 1,2-ETHANEDIOL

EDO.2: 3 residues within 4Å: Chain A: V.100, L.180, H.182 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.180 EDO.3: 6 residues within 4Å: Chain A: A.88, A.89, V.92, H.203, K.207 Ligands: EDO.9 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.203, A:K.207 Water bridges: A:A.89, A:Q.169, A:Q.169, A:D.201 EDO.4: 4 residues within 4Å: Chain A: I.84, Q.114, P.115, Q.116 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.116 EDO.5: 8 residues within 4Å: Chain A: A.264, A.267, G.268, L.309, L.313, M.321, A.322, V.323 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.268, A:V.323 EDO.7: 3 residues within 4Å: Chain A: P.9, Y.15 Ligands: TRS.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.9, A:Y.15, A:Y.15 EDO.8: 3 residues within 4Å: Chain A: C.67, I.71, I.279 No protein-ligand interaction detected (PLIP) EDO.9: 7 residues within 4Å: Chain A: T.58, A.61, A.89, V.92, S.93, H.203 Ligands: EDO.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.93, A:S.93 Water bridges: A:T.58

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

TRS.6: 6 residues within 4Å: Chain A: P.9, N.10, N.11, P.12, Y.15 Ligands: EDO.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.11, A:N.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Banasik, M. et al., Structural dynamics of the TPR domain of the peroxisomal cargo receptor Pex5 in Trypanosoma. Int.J.Biol.Macromol. (2024)

Release Date

2024-10-02

Peptides

Peroxisome targeting signal 1 receptor: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Peroxisome targeting signal 1 receptor

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