SMTL ID : 9es5.1

ADP:BeF3-bound human mitochondrial Hsp60-Hsp10 half-football complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-7-7-mer

Ligands

7 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 24 residues within 4Å: Chain A: T.30, M.31, G.32, P.33, K.51, D.87, G.88, T.89, T.90, T.91, I.150, G.415, G.416, G.417, I.455, Y.479, D.480, A.481, M.482, I.494, D.496 Ligands: BEF.2, MG.3, K.4 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:G.32, A:D.87, A:G.88, A:G.88, A:T.89, A:T.89, A:T.90, A:T.91, A:T.91, A:G.416, A:G.417, A:D.480, A:A.481, A:M.482, A:D.496 Salt bridges: A:K.51 ADP.5: 23 residues within 4Å: Chain C: T.30, M.31, G.32, P.33, K.51, D.87, G.88, T.89, T.90, T.91, I.150, G.415, G.416, I.455, Y.479, D.480, A.481, M.482, I.494, D.496 Ligands: BEF.6, MG.7, K.8 15 PLIP interactions: 15 interactions with chain C Hydrogen bonds: C:G.32, C:G.88, C:G.88, C:T.89, C:T.89, C:T.90, C:T.91, C:T.91, C:G.416, C:G.417, C:D.480, C:A.481, C:M.482, C:D.496 Salt bridges: C:K.51 ADP.9: 23 residues within 4Å: Chain E: T.30, M.31, G.32, P.33, K.51, D.87, G.88, T.89, T.90, T.91, I.150, G.415, G.416, I.455, Y.479, D.480, A.481, M.482, I.494, D.496 Ligands: BEF.10, MG.11, K.12 16 PLIP interactions: 16 interactions with chain E Hydrogen bonds: E:G.32, E:D.87, E:G.88, E:G.88, E:T.89, E:T.89, E:T.90, E:T.91, E:T.91, E:G.416, E:G.417, E:D.480, E:A.481, E:M.482, E:D.496 Salt bridges: E:K.51 ADP.13: 23 residues within 4Å: Chain G: T.30, M.31, G.32, P.33, K.51, D.87, G.88, T.89, T.90, T.91, I.150, G.415, G.416, I.455, Y.479, D.480, A.481, M.482, I.494, D.496 Ligands: BEF.14, MG.15, K.16 16 PLIP interactions: 16 interactions with chain G Hydrogen bonds: G:G.32, G:D.87, G:G.88, G:G.88, G:T.89, G:T.89, G:T.90, G:T.91, G:T.91, G:G.416, G:G.417, G:D.480, G:A.481, G:M.482, G:D.496 Salt bridges: G:K.51 ADP.17: 23 residues within 4Å: Chain I: T.30, M.31, G.32, P.33, K.51, D.87, G.88, T.89, T.90, T.91, I.150, G.415, G.416, I.455, Y.479, D.480, A.481, M.482, I.494, D.496 Ligands: BEF.18, MG.19, K.20 15 PLIP interactions: 15 interactions with chain I Hydrogen bonds: I:G.32, I:G.88, I:G.88, I:T.89, I:T.89, I:T.90, I:T.91, I:T.91, I:G.416, I:G.417, I:D.480, I:A.481, I:M.482, I:D.496 Salt bridges: I:K.51 ADP.21: 23 residues within 4Å: Chain K: T.30, M.31, G.32, P.33, K.51, D.87, G.88, T.89, T.90, T.91, I.150, G.415, G.416, I.455, Y.479, D.480, A.481, M.482, I.494, D.496 Ligands: BEF.22, MG.23, K.24 15 PLIP interactions: 15 interactions with chain K Hydrogen bonds: K:G.32, K:G.88, K:G.88, K:T.89, K:T.89, K:T.90, K:T.91, K:T.91, K:G.416, K:G.417, K:D.480, K:A.481, K:M.482, K:D.496 Salt bridges: K:K.51 ADP.25: 24 residues within 4Å: Chain M: T.30, M.31, G.32, P.33, K.51, D.87, G.88, T.89, T.90, T.91, I.150, G.415, G.416, G.417, I.455, Y.479, D.480, A.481, M.482, I.494, D.496 Ligands: BEF.26, MG.27, K.28 16 PLIP interactions: 16 interactions with chain M Hydrogen bonds: M:G.32, M:D.87, M:G.88, M:G.88, M:T.89, M:T.89, M:T.90, M:T.91, M:T.91, M:G.416, M:G.417, M:D.480, M:A.481, M:M.482, M:D.496 Salt bridges: M:K.51

7 x BEF: BERYLLIUM TRIFLUORIDE ION(Non-covalent)

BEF.2: 9 residues within 4Å: Chain A: D.52, G.53, D.87, T.89, T.90, D.399 Ligands: ADP.1, MG.3, K.4 No protein-ligand interaction detected (PLIP) BEF.6: 9 residues within 4Å: Chain C: D.52, G.53, D.87, T.89, T.90, D.399 Ligands: ADP.5, MG.7, K.8 No protein-ligand interaction detected (PLIP) BEF.10: 9 residues within 4Å: Chain E: D.52, G.53, D.87, T.89, T.90, D.399 Ligands: ADP.9, MG.11, K.12 No protein-ligand interaction detected (PLIP) BEF.14: 9 residues within 4Å: Chain G: D.52, G.53, D.87, T.89, T.90, D.399 Ligands: ADP.13, MG.15, K.16 No protein-ligand interaction detected (PLIP) BEF.18: 9 residues within 4Å: Chain I: D.52, G.53, D.87, T.89, T.90, D.399 Ligands: ADP.17, MG.19, K.20 No protein-ligand interaction detected (PLIP) BEF.22: 9 residues within 4Å: Chain K: D.52, G.53, D.87, T.89, T.90, D.399 Ligands: ADP.21, MG.23, K.24 No protein-ligand interaction detected (PLIP) BEF.26: 9 residues within 4Å: Chain M: D.52, G.53, D.87, T.89, T.90, D.399 Ligands: ADP.25, MG.27, K.28 No protein-ligand interaction detected (PLIP)

7 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: D.87 Ligands: ADP.1, BEF.2 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.87, A:D.87 MG.7: 3 residues within 4Å: Chain C: D.87 Ligands: ADP.5, BEF.6 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:D.87, C:D.87 MG.11: 3 residues within 4Å: Chain E: D.87 Ligands: ADP.9, BEF.10 2 PLIP interactions: 2 interactions with chain E Metal complexes: E:D.87, E:D.87 MG.15: 3 residues within 4Å: Chain G: D.87 Ligands: ADP.13, BEF.14 2 PLIP interactions: 2 interactions with chain G Metal complexes: G:D.87, G:D.87 MG.19: 3 residues within 4Å: Chain I: D.87 Ligands: ADP.17, BEF.18 2 PLIP interactions: 2 interactions with chain I Metal complexes: I:D.87, I:D.87 MG.23: 3 residues within 4Å: Chain K: D.87 Ligands: ADP.21, BEF.22 2 PLIP interactions: 2 interactions with chain K Metal complexes: K:D.87, K:D.87 MG.27: 3 residues within 4Å: Chain M: D.87 Ligands: ADP.25, BEF.26 2 PLIP interactions: 2 interactions with chain M Metal complexes: M:D.87, M:D.87

7 x K: POTASSIUM ION(Non-covalent)

K.4: 6 residues within 4Å: Chain A: T.30, K.51, G.53, T.90 Ligands: ADP.1, BEF.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:T.30, A:K.51, A:T.90 K.8: 6 residues within 4Å: Chain C: T.30, K.51, G.53, T.90 Ligands: ADP.5, BEF.6 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:T.30, C:K.51 K.12: 6 residues within 4Å: Chain E: T.30, K.51, G.53, T.90 Ligands: ADP.9, BEF.10 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:T.30, E:K.51, E:T.90 K.16: 6 residues within 4Å: Chain G: T.30, K.51, G.53, T.90 Ligands: ADP.13, BEF.14 2 PLIP interactions: 2 interactions with chain G Metal complexes: G:T.30, G:K.51 K.20: 6 residues within 4Å: Chain I: T.30, K.51, G.53, T.90 Ligands: ADP.17, BEF.18 2 PLIP interactions: 2 interactions with chain I Metal complexes: I:T.30, I:K.51 K.24: 6 residues within 4Å: Chain K: T.30, K.51, G.53, T.90 Ligands: ADP.21, BEF.22 2 PLIP interactions: 2 interactions with chain K Metal complexes: K:T.30, K:K.51 K.28: 6 residues within 4Å: Chain M: T.30, K.51, G.53, T.90 Ligands: ADP.25, BEF.26 2 PLIP interactions: 2 interactions with chain M Metal complexes: M:T.30, M:K.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tascon, I. et al., Structural basis for ATP-triggered assembly of human mitochondrial Hsp60-Hsp10 chaperonin. To Be Published

Release Date

2025-04-09

Peptides

60 kDa heat shock protein, mitochondrial: ACEGIKM
10 kDa heat shock protein, mitochondrial: BDFHJLN

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

E
C

G
D

I
E

K
F

M
G

B
a

D
b

F
c

H
d

J
e

L
f

N
g

60 kDa heat shock protein, mitochondrial

10 kDa heat shock protein, mitochondrial

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