SMTL ID : 8cp8.1 (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

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

ACT.1: 3 residues within 4Å: Chain A: Q.132, K.133, E.136 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Q.132 ACT.2: 4 residues within 4Å: Chain A: E.109, Y.112, D.138, S.141 1 PLIP interactions: 1 interactions with chain A Water bridges: A:D.138 ACT.6: 4 residues within 4Å: Chain A: Y.118, E.126, E.129, Y.130 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.126 Hydrogen bonds: A:E.126, A:Y.130

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

MPD.3: 4 residues within 4Å: Chain A: Y.112, N.116, Y.119, K.120 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.112, A:Y.119 MPD.4: 4 residues within 4Å: Chain A: E.7, Y.10, D.36, S.39 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.10, A:Y.10 Hydrogen bonds: A:E.7, A:E.7, A:D.36 MPD.5: 4 residues within 4Å: Chain A: E.41, Y.44, D.70, S.73 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:E.41, A:Y.44 Hydrogen bonds: A:E.41, A:E.41, A:S.73 MPD.7: 3 residues within 4Å: Chain A: Y.119, K.120, Y.124 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:K.120 Hydrogen bonds: A:Y.119, A:Y.124

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

CL.8: 5 residues within 4Å: Chain A: D.123, E.126 Ligands: CL.16, PB.25, PB.26 Ligand excluded by PLIP CL.9: 4 residues within 4Å: Chain A: D.21, D.23, E.24 Ligands: PB.21 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain A: D.89, E.92 Ligands: PB.23 Ligand excluded by PLIP CL.11: 3 residues within 4Å: Chain A: E.58, E.61 Ligands: PB.27 Ligand excluded by PLIP CL.12: 1 residues within 4Å: Chain A: K.86 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain A: D.55, D.57 Ligands: PB.22 Ligand excluded by PLIP CL.14: 3 residues within 4Å: Chain A: Q.87, D.89 Ligands: PB.23 Ligand excluded by PLIP CL.15: 4 residues within 4Å: Chain A: D.55, D.57, E.58 Ligands: PB.22 Ligand excluded by PLIP CL.16: 3 residues within 4Å: Chain A: D.123 Ligands: CL.8, PB.26 Ligand excluded by PLIP CL.17: 4 residues within 4Å: Chain A: Q.121, D.123 Ligands: PB.24, PB.26 Ligand excluded by PLIP CL.18: 5 residues within 4Å: Chain A: D.23, E.24, E.27 Ligands: CL.19, CL.20 Ligand excluded by PLIP CL.19: 2 residues within 4Å: Chain A: D.23 Ligands: CL.18 Ligand excluded by PLIP CL.20: 1 residues within 4Å: Ligands: CL.18 Ligand excluded by PLIP

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

PB.21: 3 residues within 4Å: Chain A: D.23, E.24 Ligands: CL.9 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.23, A:E.24, A:E.24 PB.22: 4 residues within 4Å: Chain A: D.55, D.57 Ligands: CL.13, CL.15 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.55, A:D.57, A:D.57 PB.23: 3 residues within 4Å: Chain A: D.89 Ligands: CL.10, CL.14 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.89, A:D.89 PB.24: 3 residues within 4Å: Chain A: D.91, Q.121 Ligands: CL.17 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.91, A:D.91 PB.25: 3 residues within 4Å: Chain A: D.125, E.126 Ligands: CL.8 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.125, A:D.125, A:E.126, A:E.126, H2O.2 PB.26: 4 residues within 4Å: Chain A: D.123 Ligands: CL.8, CL.16, CL.17 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.123, A:D.123, H2O.2 PB.27: 4 residues within 4Å: Chain A: E.58, E.61, Y.62 Ligands: CL.11 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.58, A:E.58, A:E.61, H2O.1

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
A

Consensus tetratricopeptide repeat protein

Related Entries With Identical Sequence