SMTL ID : 6mrd.1

ADP-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: 22 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: MG.2 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:G.32, A:G.88, A:G.88, A:T.89, A:T.90, A:T.90, A:T.91, A:G.416, A:G.417, A:D.480, A:D.480, A:A.481, A:D.496 Salt bridges: A:K.51 ADP.3: 22 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, G.417, I.455, Y.479, D.480, A.481, M.482, I.494, D.496 Ligands: MG.4 14 PLIP interactions: 14 interactions with chain I Hydrogen bonds: I:G.32, I:G.88, I:G.88, I:T.89, I:T.90, I:T.90, I:T.91, I:G.416, I:G.417, I:D.480, I:D.480, I:A.481, I:D.496 Salt bridges: I:K.51 ADP.5: 18 residues within 4Å: Chain J: M.31, G.32, P.33, D.87, G.88, T.91, I.150, G.415, G.416, I.455, Y.479, D.480, A.481, M.482, I.494, D.496, V.500 Ligands: MG.6 7 PLIP interactions: 7 interactions with chain J Hydrogen bonds: J:G.32, J:T.91, J:G.416, J:D.480, J:D.480, J:A.481, J:D.496 ADP.7: 22 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, G.417, I.455, Y.479, D.480, A.481, M.482, I.494, D.496 Ligands: MG.8 14 PLIP interactions: 14 interactions with chain K Hydrogen bonds: K:G.32, K:G.88, K:G.88, K:T.89, K:T.90, K:T.90, K:T.91, K:G.416, K:G.417, K:D.480, K:D.480, K:A.481, K:D.496 Salt bridges: K:K.51 ADP.9: 22 residues within 4Å: Chain L: 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: MG.10 14 PLIP interactions: 14 interactions with chain L Hydrogen bonds: L:G.32, L:G.88, L:G.88, L:T.89, L:T.90, L:T.90, L:T.91, L:G.416, L:G.417, L:D.480, L:D.480, L:A.481, L:D.496 Salt bridges: L:K.51 ADP.11: 20 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, Y.479, D.480, A.481, I.494, D.496 Ligands: MG.12 14 PLIP interactions: 14 interactions with chain M Hydrogen bonds: M:G.32, M:D.87, M:G.88, M:G.88, M:T.89, M:T.90, M:T.90, M:T.91, M:G.416, M:G.417, M:D.480, M:D.480, M:D.496 Salt bridges: M:K.51 ADP.13: 22 residues within 4Å: Chain N: 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: MG.14 14 PLIP interactions: 14 interactions with chain N Hydrogen bonds: N:G.32, N:G.88, N:G.88, N:T.89, N:T.90, N:T.90, N:T.91, N:G.416, N:G.417, N:D.480, N:D.480, N:A.481, N:D.496 Salt bridges: N:K.51

7 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.2: 3 residues within 4Å: Chain A: D.87, G.88 Ligands: ADP.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.87, A:D.87 MG.4: 3 residues within 4Å: Chain I: D.87, G.88 Ligands: ADP.3 2 PLIP interactions: 2 interactions with chain I Metal complexes: I:D.87, I:D.87 MG.6: 3 residues within 4Å: Chain J: T.90, T.91 Ligands: ADP.5 No protein-ligand interaction detected (PLIP) MG.8: 3 residues within 4Å: Chain K: D.87, G.88 Ligands: ADP.7 2 PLIP interactions: 2 interactions with chain K Metal complexes: K:D.87, K:D.87 MG.10: 3 residues within 4Å: Chain L: D.87, G.88 Ligands: ADP.9 2 PLIP interactions: 2 interactions with chain L Metal complexes: L:D.87, L:D.87 MG.12: 1 residues within 4Å: Ligands: ADP.11 No protein-ligand interaction detected (PLIP) MG.14: 3 residues within 4Å: Chain N: D.87, G.88 Ligands: ADP.13 2 PLIP interactions: 2 interactions with chain N Metal complexes: N:D.87, N:D.87

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gomez-Llorente, Y. et al., Structural basis for active single and double ring complexes in human mitochondrial Hsp60-Hsp10 chaperonin. Nat Commun (2020)

Release Date

2020-04-15

Peptides

60 kDa heat shock protein, mitochondrial: AIJKLMN
10 kDa heat shock protein, mitochondrial: BCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

I
G

J
F

K
E

L
D

M
C

N
B

B
O

C
U

D
T

E
S

F
R

G
Q

H
P

60 kDa heat shock protein, mitochondrial

10 kDa heat shock protein, mitochondrial

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