SMTL ID : 8cp8.2 (1 other biounit)

Crystal structure of an 8-repeat consensus TPR superhelix with Lead

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.68 Å

Oligo State

monomer

Ligands

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

ACT.1: 2 residues within 4Å: Chain A: N.14, Y.17 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.17 Hydrogen bonds: A:N.14, A:Y.29 Salt bridges: A:K.18 ACT.3: 4 residues within 4Å: Chain A: Y.17, N.48, Y.63, N.79 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.48 Water bridges: A:Y.17 ACT.4: 3 residues within 4Å: Chain A: E.24, E.27, Y.28 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:E.24 Hydrogen bonds: A:Y.28 ACT.5: 4 residues within 4Å: Chain A: Y.51, N.82, K.86, N.113 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.82 Salt bridges: A:K.86 ACT.6: 3 residues within 4Å: Chain A: Y.78, D.104, S.107 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.107

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.2: 6 residues within 4Å: Chain A: A.40, E.41, Y.44, D.70, S.73, A.76 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:A.40, A:Y.44, A:A.76 Hydrogen bonds: A:D.70, A:S.73, A:S.73

7 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 1 residues within 4Å: Chain A: K.86 Ligand excluded by PLIP CL.8: 5 residues within 4Å: Chain A: G.122, D.123, Y.124, D.125 Ligands: CL.9 Ligand excluded by PLIP CL.9: 4 residues within 4Å: Chain A: D.123, D.125 Ligands: CL.8, PB.16 Ligand excluded by PLIP CL.10: 4 residues within 4Å: Chain A: D.21, D.23, E.24 Ligands: PB.15 Ligand excluded by PLIP CL.11: 3 residues within 4Å: Chain A: D.89, D.91 Ligands: PB.14 Ligand excluded by PLIP CL.12: 4 residues within 4Å: Chain A: Y.51, K.52, Y.56 Ligands: CL.13 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain A: Y.51, K.52 Ligands: CL.12 Ligand excluded by PLIP

6 x PB: LEAD (II) ION(Non-covalent)

PB.14: 4 residues within 4Å: Chain A: D.89, D.91, E.92 Ligands: CL.11 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.91, A:D.91, A:E.92, A:E.92 PB.15: 3 residues within 4Å: Chain A: D.23, E.24 Ligands: CL.10 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.23, A:D.23, A:E.24, A:E.24, H2O.2 PB.16: 3 residues within 4Å: Chain A: D.123, D.125 Ligands: CL.9 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.123, A:D.125 PB.17: 3 residues within 4Å: Chain A: E.126, E.129, Y.130 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.126, A:E.129, A:Y.130 PB.18: 3 residues within 4Å: Chain A: E.58, E.61, Y.62 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.58, A:E.58, A:E.61 PB.19: 3 residues within 4Å: Chain A: D.125, E.126, E.129 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.125, A:E.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liutkus, M. et al., Diverse crystalline protein scaffolds through metal-dependent polymorphism. Protein Sci. (2024)

Release Date

2024-03-13

Peptides

Consensus tetratricopeptide repeat protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Consensus tetratricopeptide repeat protein

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