SMTL ID : 8wuw.1

Cryo-EM structure of H. thermophilus GroEL-GroES2 asymmetric football complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-14-14-mer

Ligands

14 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: D.86 Ligands: ANP.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.86 MG.3: 3 residues within 4Å: Chain B: D.86, S.150 Ligands: ANP.5 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.86 MG.6: 2 residues within 4Å: Chain E: D.86 Ligands: ANP.7 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:D.86 MG.8: 3 residues within 4Å: Chain F: D.86, S.150 Ligands: ANP.10 1 PLIP interactions: 1 interactions with chain F Metal complexes: F:D.86 MG.11: 2 residues within 4Å: Chain I: D.86 Ligands: ANP.12 1 PLIP interactions: 1 interactions with chain I Metal complexes: I:D.86 MG.13: 3 residues within 4Å: Chain J: D.86, S.150 Ligands: ANP.15 1 PLIP interactions: 1 interactions with chain J Metal complexes: J:D.86 MG.16: 2 residues within 4Å: Chain M: D.86 Ligands: ANP.17 2 PLIP interactions: 2 interactions with chain M Metal complexes: M:D.86, M:D.86 MG.18: 3 residues within 4Å: Chain N: D.86, S.150 Ligands: ANP.20 2 PLIP interactions: 2 interactions with chain N Metal complexes: N:D.86, N:D.86 MG.21: 3 residues within 4Å: Chain Q: D.86, D.397 Ligands: ANP.22 1 PLIP interactions: 1 interactions with chain Q Metal complexes: Q:D.86 MG.23: 3 residues within 4Å: Chain R: D.86, S.150 Ligands: ANP.25 1 PLIP interactions: 1 interactions with chain R Metal complexes: R:D.86 MG.26: 2 residues within 4Å: Chain U: D.86 Ligands: ANP.27 1 PLIP interactions: 1 interactions with chain U Metal complexes: U:D.86 MG.28: 3 residues within 4Å: Chain V: D.86, S.150 Ligands: ANP.30 1 PLIP interactions: 1 interactions with chain V Metal complexes: V:D.86 MG.31: 3 residues within 4Å: Chain Y: D.86, D.397 Ligands: ANP.32 1 PLIP interactions: 1 interactions with chain Y Metal complexes: Y:D.86 MG.33: 3 residues within 4Å: Chain Z: D.86, S.150 Ligands: ANP.35 1 PLIP interactions: 1 interactions with chain Z Metal complexes: Z:D.86

14 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.2: 26 residues within 4Å: Chain A: T.29, L.30, G.31, P.32, K.50, D.51, G.52, D.86, G.87, T.88, T.89, T.90, I.149, N.153, D.397, G.413, G.414, G.415, I.453, F.481, D.482, A.483, G.484, I.496, D.498 Ligands: MG.1 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:G.31, A:D.51, A:D.51, A:G.52, A:G.87, A:G.87, A:T.88, A:T.89, A:T.89, A:T.90, A:N.153, A:G.414, A:G.415, A:D.482, A:D.482, A:A.483, A:G.484, A:D.498 Salt bridges: A:K.50 ANP.5: 23 residues within 4Å: Chain B: T.29, L.30, G.31, P.32, D.51, V.53, D.86, G.87, T.88, T.89, T.90, N.153, G.413, G.414, I.453, F.481, D.482, A.483, G.484, I.496, D.498 Ligands: MG.3, K.4 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:G.31, B:D.51, B:V.53, B:G.87, B:G.87, B:T.88, B:T.88, B:T.89, B:T.90, B:N.153, B:G.414, B:D.482, B:D.482, B:A.483, B:G.484, B:D.498 ANP.7: 26 residues within 4Å: Chain E: T.29, L.30, G.31, P.32, K.50, D.51, G.52, D.86, G.87, T.88, T.89, T.90, I.149, N.153, D.397, G.413, G.414, G.415, I.453, F.481, D.482, A.483, G.484, I.496, D.498 Ligands: MG.6 20 PLIP interactions: 20 interactions with chain E Hydrogen bonds: E:G.31, E:D.51, E:D.51, E:G.52, E:D.86, E:G.87, E:G.87, E:T.88, E:T.89, E:T.89, E:T.90, E:N.153, E:G.414, E:G.415, E:D.482, E:D.482, E:A.483, E:G.484, E:D.498 Salt bridges: E:K.50 ANP.10: 23 residues within 4Å: Chain F: T.29, L.30, G.31, P.32, D.51, V.53, D.86, G.87, T.88, T.89, T.90, N.153, G.413, G.414, I.453, F.481, D.482, A.483, G.484, I.496, D.498 Ligands: MG.8, K.9 16 PLIP interactions: 16 interactions with chain F Hydrogen bonds: F:G.31, F:D.51, F:V.53, F:G.87, F:G.87, F:T.88, F:T.88, F:T.89, F:T.90, F:N.153, F:G.414, F:D.482, F:D.482, F:A.483, F:G.484, F:D.498 ANP.12: 26 residues within 4Å: Chain I: T.29, L.30, G.31, P.32, K.50, D.51, G.52, D.86, G.87, T.88, T.89, T.90, I.149, N.153, D.397, G.413, G.414, G.415, I.453, F.481, D.482, A.483, G.484, I.496, D.498 Ligands: MG.11 20 PLIP interactions: 20 interactions with chain I Hydrogen bonds: I:G.31, I:D.51, I:D.51, I:G.52, I:D.86, I:G.87, I:G.87, I:T.88, I:T.89, I:T.89, I:T.90, I:N.153, I:G.414, I:G.415, I:D.482, I:D.482, I:A.483, I:G.484, I:D.498 Salt bridges: I:K.50 ANP.15: 23 residues within 4Å: Chain J: T.29, L.30, G.31, P.32, D.51, V.53, D.86, G.87, T.88, T.89, T.90, N.153, G.413, G.414, I.453, F.481, D.482, A.483, G.484, I.496, D.498 Ligands: MG.13, K.14 16 PLIP interactions: 16 interactions with chain J Hydrogen bonds: J:G.31, J:D.51, J:V.53, J:G.87, J:G.87, J:T.88, J:T.88, J:T.89, J:T.90, J:N.153, J:G.414, J:D.482, J:D.482, J:A.483, J:G.484, J:D.498 ANP.17: 26 residues within 4Å: Chain M: T.29, L.30, G.31, P.32, K.50, D.51, G.52, D.86, G.87, T.88, T.89, T.90, I.149, N.153, D.397, G.413, G.414, G.415, I.453, F.481, D.482, A.483, G.484, I.496, D.498 Ligands: MG.16 20 PLIP interactions: 20 interactions with chain M Hydrogen bonds: M:G.31, M:D.51, M:D.51, M:G.52, M:G.87, M:G.87, M:T.88, M:T.89, M:T.89, M:T.90, M:N.153, M:D.397, M:G.414, M:G.415, M:D.482, M:D.482, M:A.483, M:G.484, M:D.498 Salt bridges: M:K.50 ANP.20: 23 residues within 4Å: Chain N: T.29, L.30, G.31, P.32, D.51, V.53, D.86, G.87, T.88, T.89, T.90, N.153, G.413, G.414, I.453, F.481, D.482, A.483, G.484, I.496, D.498 Ligands: MG.18, K.19 16 PLIP interactions: 16 interactions with chain N Hydrogen bonds: N:G.31, N:V.53, N:G.87, N:G.87, N:T.88, N:T.88, N:T.89, N:T.90, N:N.153, N:G.414, N:G.415, N:D.482, N:D.482, N:A.483, N:G.484, N:D.498 ANP.22: 26 residues within 4Å: Chain Q: T.29, L.30, G.31, P.32, K.50, D.51, G.52, D.86, G.87, T.88, T.89, T.90, I.149, N.153, D.397, G.413, G.414, G.415, I.453, F.481, D.482, A.483, G.484, I.496, D.498 Ligands: MG.21 20 PLIP interactions: 20 interactions with chain Q Hydrogen bonds: Q:G.31, Q:D.51, Q:D.51, Q:G.52, Q:D.86, Q:G.87, Q:G.87, Q:T.88, Q:T.89, Q:T.89, Q:T.90, Q:N.153, Q:G.414, Q:G.415, Q:D.482, Q:D.482, Q:A.483, Q:G.484, Q:D.498 Salt bridges: Q:K.50 ANP.25: 23 residues within 4Å: Chain R: T.29, L.30, G.31, P.32, D.51, V.53, D.86, G.87, T.88, T.89, T.90, N.153, G.413, G.414, I.453, F.481, D.482, A.483, G.484, I.496, D.498 Ligands: MG.23, K.24 15 PLIP interactions: 15 interactions with chain R Hydrogen bonds: R:G.31, R:V.53, R:G.87, R:G.87, R:T.88, R:T.88, R:T.89, R:T.90, R:N.153, R:G.414, R:D.482, R:D.482, R:A.483, R:G.484, R:D.498 ANP.27: 26 residues within 4Å: Chain U: T.29, L.30, G.31, P.32, K.50, D.51, G.52, D.86, G.87, T.88, T.89, T.90, I.149, N.153, D.397, G.413, G.414, G.415, I.453, F.481, D.482, A.483, G.484, I.496, D.498 Ligands: MG.26 19 PLIP interactions: 19 interactions with chain U Hydrogen bonds: U:G.31, U:D.51, U:D.51, U:G.52, U:D.86, U:G.87, U:G.87, U:T.88, U:T.89, U:T.89, U:T.90, U:N.153, U:G.414, U:G.415, U:D.482, U:A.483, U:G.484, U:D.498 Salt bridges: U:K.50 ANP.30: 23 residues within 4Å: Chain V: T.29, L.30, G.31, P.32, D.51, V.53, D.86, G.87, T.88, T.89, T.90, N.153, G.413, G.414, I.453, F.481, D.482, A.483, G.484, I.496, D.498 Ligands: MG.28, K.29 15 PLIP interactions: 15 interactions with chain V Hydrogen bonds: V:G.31, V:V.53, V:G.87, V:G.87, V:T.88, V:T.88, V:T.89, V:T.90, V:N.153, V:G.414, V:D.482, V:D.482, V:A.483, V:G.484, V:D.498 ANP.32: 26 residues within 4Å: Chain Y: T.29, L.30, G.31, P.32, K.50, D.51, G.52, D.86, G.87, T.88, T.89, T.90, I.149, N.153, D.397, G.413, G.414, G.415, I.453, F.481, D.482, A.483, G.484, I.496, D.498 Ligands: MG.31 20 PLIP interactions: 20 interactions with chain Y Hydrogen bonds: Y:G.31, Y:D.51, Y:D.51, Y:G.52, Y:G.87, Y:G.87, Y:T.88, Y:T.89, Y:T.89, Y:T.90, Y:N.153, Y:D.397, Y:G.414, Y:G.415, Y:D.482, Y:A.483, Y:G.484, Y:D.498, Y:D.498 Salt bridges: Y:K.50 ANP.35: 23 residues within 4Å: Chain Z: T.29, L.30, G.31, P.32, D.51, V.53, D.86, G.87, T.88, T.89, T.90, N.153, G.413, G.414, I.453, F.481, D.482, A.483, G.484, I.496, D.498 Ligands: MG.33, K.34 16 PLIP interactions: 16 interactions with chain Z Hydrogen bonds: Z:G.31, Z:D.51, Z:V.53, Z:G.87, Z:G.87, Z:T.88, Z:T.88, Z:T.89, Z:T.90, Z:N.153, Z:G.414, Z:D.482, Z:D.482, Z:A.483, Z:G.484, Z:D.498

7 x K: POTASSIUM ION(Non-covalent)

K.4: 4 residues within 4Å: Chain B: T.29, G.31, K.50 Ligands: ANP.5 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:T.29, B:G.31, B:K.50 K.9: 4 residues within 4Å: Chain F: T.29, G.31, K.50 Ligands: ANP.10 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:T.29, F:G.31, F:K.50 K.14: 4 residues within 4Å: Chain J: T.29, G.31, K.50 Ligands: ANP.15 3 PLIP interactions: 3 interactions with chain J Metal complexes: J:T.29, J:G.31, J:K.50 K.19: 4 residues within 4Å: Chain N: T.29, G.31, K.50 Ligands: ANP.20 3 PLIP interactions: 3 interactions with chain N Metal complexes: N:T.29, N:G.31, N:K.50 K.24: 4 residues within 4Å: Chain R: T.29, G.31, K.50 Ligands: ANP.25 3 PLIP interactions: 3 interactions with chain R Metal complexes: R:T.29, R:G.31, R:K.50 K.29: 4 residues within 4Å: Chain V: T.29, G.31, K.50 Ligands: ANP.30 3 PLIP interactions: 3 interactions with chain V Metal complexes: V:T.29, V:G.31, V:K.50 K.34: 4 residues within 4Å: Chain Z: T.29, G.31, K.50 Ligands: ANP.35 3 PLIP interactions: 3 interactions with chain Z Metal complexes: Z:T.29, Z:G.31, Z:K.50

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: ABEFIJMNQRUVYZ
Co-chaperonin GroES: CDGHKLOPSTWX01

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

E
B

F
I

I
C

J
J

M
D

N
K

Q
E

R
L

U
F

V
M

Y
G

Z
N

C
a

D
h

G
b

H
i

K
c

L
j

O
d

P
k

S
e

T
l

W
f

X
m

0
g

1
n

Chaperonin GroEL

Co-chaperonin GroES

Related Entries With Identical Sequence