SMTL ID : 8wuc.1

Cryo-EM structure of H. thermoluteolus GroEL-GroES2 football complex

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-14-14-mer

Ligands

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

ADP.1: 21 residues within 4Å: Chain A: T.29, L.30, G.31, P.32, K.50, D.86, G.87, T.88, T.89, T.90, I.149, G.413, G.414, I.455, Y.479, N.480, A.481, A.482, V.494, D.496 Ligands: MG.2 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:G.31, A:D.86, A:G.87, A:T.89, A:T.90, A:T.90, A:G.414, A:N.480, A:A.481, A:A.482, A:D.496 Salt bridges: A:K.50 ADP.3: 22 residues within 4Å: Chain C: T.29, L.30, G.31, P.32, K.50, D.86, G.87, T.88, T.89, T.90, I.149, G.413, G.414, I.455, Y.479, N.480, A.481, A.482, M.489, V.494, D.496 Ligands: MG.4 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:G.31, C:G.87, C:T.89, C:T.90, C:T.90, C:G.414, C:G.415, C:N.480, C:A.481, C:A.482, C:D.496 Salt bridges: C:K.50 ADP.5: 22 residues within 4Å: Chain E: T.29, L.30, G.31, P.32, K.50, D.86, G.87, T.88, T.89, T.90, I.149, G.413, G.414, I.455, Y.479, N.480, A.481, A.482, M.489, V.494, D.496 Ligands: MG.6 12 PLIP interactions: 12 interactions with chain E Hydrogen bonds: E:G.31, E:D.86, E:G.87, E:T.89, E:T.90, E:T.90, E:G.414, E:N.480, E:A.481, E:A.482, E:D.496 Salt bridges: E:K.50 ADP.7: 22 residues within 4Å: Chain G: T.29, L.30, G.31, P.32, K.50, D.86, G.87, T.88, T.89, T.90, I.149, G.413, G.414, I.455, Y.479, N.480, A.481, A.482, M.489, V.494, D.496 Ligands: MG.8 12 PLIP interactions: 12 interactions with chain G Hydrogen bonds: G:G.31, G:D.86, G:G.87, G:T.89, G:T.90, G:T.90, G:G.414, G:N.480, G:A.481, G:A.482, G:D.496 Salt bridges: G:K.50 ADP.9: 22 residues within 4Å: Chain I: T.29, L.30, G.31, P.32, K.50, D.86, G.87, T.88, T.89, T.90, I.149, G.413, G.414, I.455, Y.479, N.480, A.481, A.482, M.489, V.494, D.496 Ligands: MG.10 12 PLIP interactions: 12 interactions with chain I Hydrogen bonds: I:G.31, I:G.87, I:T.89, I:T.90, I:T.90, I:G.414, I:G.415, I:N.480, I:A.481, I:A.482, I:D.496 Salt bridges: I:K.50 ADP.11: 22 residues within 4Å: Chain K: T.29, L.30, G.31, P.32, K.50, D.86, G.87, T.88, T.89, T.90, I.149, G.413, G.414, I.455, Y.479, N.480, A.481, A.482, M.489, V.494, D.496 Ligands: MG.12 12 PLIP interactions: 12 interactions with chain K Hydrogen bonds: K:G.31, K:G.87, K:G.87, K:T.89, K:T.90, K:T.90, K:G.414, K:N.480, K:A.481, K:A.482, K:D.496 Salt bridges: K:K.50 ADP.13: 22 residues within 4Å: Chain M: T.29, L.30, G.31, P.32, K.50, D.86, G.87, T.88, T.89, T.90, I.149, G.413, G.414, I.455, Y.479, N.480, A.481, A.482, M.489, V.494, D.496 Ligands: MG.14 14 PLIP interactions: 14 interactions with chain M Hydrogen bonds: M:G.31, M:D.86, M:G.87, M:T.89, M:T.89, M:T.90, M:T.90, M:G.414, M:G.415, M:N.480, M:A.481, M:A.482, M:D.496 Salt bridges: M:K.50 ADP.15: 22 residues within 4Å: Chain O: T.29, L.30, G.31, P.32, K.50, D.86, G.87, T.88, T.89, T.90, I.149, G.413, G.414, I.455, Y.479, N.480, A.481, A.482, M.489, V.494, D.496 Ligands: MG.16 14 PLIP interactions: 14 interactions with chain O Hydrogen bonds: O:G.31, O:D.86, O:G.87, O:G.87, O:T.89, O:T.89, O:T.90, O:G.414, O:G.415, O:N.480, O:A.481, O:A.482, O:D.496 Salt bridges: O:K.50 ADP.17: 22 residues within 4Å: Chain Q: T.29, L.30, G.31, P.32, K.50, D.86, G.87, T.88, T.89, T.90, I.149, G.413, G.414, I.455, Y.479, N.480, A.481, A.482, M.489, V.494, D.496 Ligands: MG.18 13 PLIP interactions: 13 interactions with chain Q Hydrogen bonds: Q:G.31, Q:G.87, Q:G.87, Q:T.89, Q:T.89, Q:T.90, Q:G.414, Q:G.415, Q:N.480, Q:A.481, Q:A.482, Q:D.496 Salt bridges: Q:K.50 ADP.19: 22 residues within 4Å: Chain S: T.29, L.30, G.31, P.32, K.50, D.86, G.87, T.88, T.89, T.90, I.149, G.413, G.414, I.455, Y.479, N.480, A.481, A.482, M.489, V.494, D.496 Ligands: MG.20 13 PLIP interactions: 13 interactions with chain S Hydrogen bonds: S:G.31, S:G.87, S:G.87, S:T.89, S:T.89, S:T.90, S:G.414, S:G.415, S:N.480, S:A.481, S:A.482, S:D.496 Salt bridges: S:K.50 ADP.21: 22 residues within 4Å: Chain U: T.29, L.30, G.31, P.32, K.50, D.86, G.87, T.88, T.89, T.90, I.149, G.413, G.414, I.455, Y.479, N.480, A.481, A.482, M.489, V.494, D.496 Ligands: MG.22 12 PLIP interactions: 12 interactions with chain U Hydrogen bonds: U:G.31, U:G.87, U:G.87, U:T.89, U:T.89, U:T.90, U:G.414, U:N.480, U:A.481, U:A.482, U:D.496 Salt bridges: U:K.50 ADP.23: 22 residues within 4Å: Chain W: T.29, L.30, G.31, P.32, K.50, D.86, G.87, T.88, T.89, T.90, I.149, G.413, G.414, I.455, Y.479, N.480, A.481, A.482, M.489, V.494, D.496 Ligands: MG.24 12 PLIP interactions: 12 interactions with chain W Hydrogen bonds: W:G.31, W:G.87, W:G.87, W:T.89, W:T.89, W:T.90, W:G.414, W:N.480, W:A.481, W:A.482, W:D.496 Salt bridges: W:K.50 ADP.25: 21 residues within 4Å: Chain Y: T.29, L.30, G.31, P.32, K.50, D.86, G.87, T.88, T.89, T.90, I.149, G.413, G.414, I.455, Y.479, N.480, A.481, A.482, V.494, D.496 Ligands: MG.26 13 PLIP interactions: 13 interactions with chain Y Hydrogen bonds: Y:G.31, Y:G.87, Y:G.87, Y:T.89, Y:T.89, Y:T.90, Y:G.414, Y:G.415, Y:N.480, Y:A.481, Y:A.482, Y:D.496 Salt bridges: Y:K.50 ADP.27: 22 residues within 4Å: Chain 0: T.29, L.30, G.31, P.32, K.50, D.86, G.87, T.88, T.89, T.90, I.149, G.413, G.414, I.455, Y.479, N.480, A.481, A.482, M.489, V.494, D.496 Ligands: MG.28 14 PLIP interactions: 14 interactions with chain 0 Hydrogen bonds: 0:G.31, 0:G.87, 0:G.87, 0:T.89, 0:T.89, 0:T.89, 0:T.90, 0:G.414, 0:G.415, 0:N.480, 0:A.481, 0:A.482, 0:D.496 Salt bridges: 0:K.50

14 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: D.86 Ligands: ADP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.86 MG.4: 2 residues within 4Å: Chain C: D.86 Ligands: ADP.3 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:D.86 MG.6: 2 residues within 4Å: Chain E: D.86 Ligands: ADP.5 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:D.86 MG.8: 2 residues within 4Å: Chain G: D.86 Ligands: ADP.7 1 PLIP interactions: 1 interactions with chain G Metal complexes: G:D.86 MG.10: 2 residues within 4Å: Chain I: D.86 Ligands: ADP.9 1 PLIP interactions: 1 interactions with chain I Metal complexes: I:D.86 MG.12: 2 residues within 4Å: Chain K: D.86 Ligands: ADP.11 1 PLIP interactions: 1 interactions with chain K Metal complexes: K:D.86 MG.14: 2 residues within 4Å: Chain M: D.86 Ligands: ADP.13 1 PLIP interactions: 1 interactions with chain M Metal complexes: M:D.86 MG.16: 2 residues within 4Å: Chain O: D.86 Ligands: ADP.15 1 PLIP interactions: 1 interactions with chain O Metal complexes: O:D.86 MG.18: 2 residues within 4Å: Chain Q: D.86 Ligands: ADP.17 1 PLIP interactions: 1 interactions with chain Q Metal complexes: Q:D.86 MG.20: 2 residues within 4Å: Chain S: D.86 Ligands: ADP.19 1 PLIP interactions: 1 interactions with chain S Metal complexes: S:D.86 MG.22: 2 residues within 4Å: Chain U: D.86 Ligands: ADP.21 1 PLIP interactions: 1 interactions with chain U Metal complexes: U:D.86 MG.24: 2 residues within 4Å: Chain W: D.86 Ligands: ADP.23 1 PLIP interactions: 1 interactions with chain W Metal complexes: W:D.86 MG.26: 2 residues within 4Å: Chain Y: D.86 Ligands: ADP.25 1 PLIP interactions: 1 interactions with chain Y Metal complexes: Y:D.86 MG.28: 2 residues within 4Å: Chain 0: D.86 Ligands: ADP.27 1 PLIP interactions: 1 interactions with chain 0 Metal complexes: 0:D.86

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liao, Z. et al., Structural insights into thermophilic chaperonin complexes. Structure (2024)

Release Date

2024-03-27

Peptides

Chaperonin GroEL: ACEGIKMOQSUWY0
Co-chaperonin GroES: BDFHJLNPRTVXZ1

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

E
C

G
D

I
E

K
F

M
G

O
H

Q
I

S
J

U
K

W
L

Y
M

0
N

B
a

D
b

F
c

H
d

J
e

L
f

N
g

P
h

R
i

T
j

V
k

X
l

Z
m

1
n

Chaperonin GroEL

Co-chaperonin GroES