SMTL ID : 7rak.1

Methanococcus maripaludis chaperonin complex in open conformation

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-16-mer

Ligands

16 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 18 residues within 4Å: Chain A: L.24, G.25, P.26, G.46, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:G.46, A:V.47, A:D.76, A:T.78, A:T.79, A:T.79, A:T.80, A:T.144, A:G.389, A:N.459, A:E.475 Salt bridges: A:K.146, A:K.146 ATP.2: 18 residues within 4Å: Chain B: L.24, G.25, P.26, G.46, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:G.46, B:V.47, B:D.76, B:T.78, B:T.79, B:T.79, B:T.80, B:T.144, B:G.389, B:N.459, B:E.475 Salt bridges: B:K.146, B:K.146 ATP.3: 18 residues within 4Å: Chain C: L.24, G.25, P.26, G.46, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 13 PLIP interactions: 13 interactions with chain C Hydrogen bonds: C:G.46, C:V.47, C:D.76, C:T.78, C:T.79, C:T.79, C:T.80, C:T.144, C:G.389, C:N.459, C:E.475 Salt bridges: C:K.146, C:K.146 ATP.4: 18 residues within 4Å: Chain D: L.24, G.25, P.26, G.46, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 13 PLIP interactions: 13 interactions with chain D Hydrogen bonds: D:G.46, D:V.47, D:D.76, D:T.78, D:T.79, D:T.79, D:T.80, D:T.144, D:G.389, D:N.459, D:E.475 Salt bridges: D:K.146, D:K.146 ATP.5: 18 residues within 4Å: Chain E: L.24, G.25, P.26, G.46, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 13 PLIP interactions: 13 interactions with chain E Hydrogen bonds: E:G.46, E:V.47, E:D.76, E:T.78, E:T.79, E:T.79, E:T.80, E:T.144, E:G.389, E:N.459, E:E.475 Salt bridges: E:K.146, E:K.146 ATP.6: 18 residues within 4Å: Chain F: L.24, G.25, P.26, G.46, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 13 PLIP interactions: 13 interactions with chain F Hydrogen bonds: F:G.46, F:V.47, F:D.76, F:T.78, F:T.79, F:T.79, F:T.80, F:T.144, F:G.389, F:N.459, F:E.475 Salt bridges: F:K.146, F:K.146 ATP.7: 18 residues within 4Å: Chain G: L.24, G.25, P.26, G.46, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 13 PLIP interactions: 13 interactions with chain G Hydrogen bonds: G:G.46, G:V.47, G:D.76, G:T.78, G:T.79, G:T.79, G:T.80, G:T.144, G:G.389, G:N.459, G:E.475 Salt bridges: G:K.146, G:K.146 ATP.8: 17 residues within 4Å: Chain H: L.24, G.25, P.26, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 13 PLIP interactions: 13 interactions with chain H Hydrogen bonds: H:G.46, H:V.47, H:D.76, H:T.78, H:T.79, H:T.79, H:T.80, H:T.144, H:G.389, H:N.459, H:E.475 Salt bridges: H:K.146, H:K.146 ATP.9: 18 residues within 4Å: Chain I: L.24, G.25, P.26, G.46, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 14 PLIP interactions: 14 interactions with chain I Hydrogen bonds: I:G.46, I:V.47, I:D.76, I:D.76, I:T.78, I:T.79, I:T.79, I:T.80, I:T.144, I:G.389, I:N.459, I:E.475 Salt bridges: I:K.146, I:K.146 ATP.10: 18 residues within 4Å: Chain J: L.24, G.25, P.26, G.46, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 14 PLIP interactions: 14 interactions with chain J Hydrogen bonds: J:G.46, J:V.47, J:D.76, J:D.76, J:T.78, J:T.79, J:T.79, J:T.80, J:T.144, J:G.389, J:N.459, J:E.475 Salt bridges: J:K.146, J:K.146 ATP.11: 18 residues within 4Å: Chain K: L.24, G.25, P.26, G.46, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 14 PLIP interactions: 14 interactions with chain K Hydrogen bonds: K:G.46, K:V.47, K:D.76, K:D.76, K:T.78, K:T.79, K:T.79, K:T.80, K:T.144, K:G.389, K:N.459, K:E.475 Salt bridges: K:K.146, K:K.146 ATP.12: 17 residues within 4Å: Chain L: L.24, G.25, P.26, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 14 PLIP interactions: 14 interactions with chain L Hydrogen bonds: L:G.46, L:V.47, L:D.76, L:D.76, L:T.78, L:T.79, L:T.79, L:T.80, L:T.144, L:G.389, L:N.459, L:E.475 Salt bridges: L:K.146, L:K.146 ATP.13: 18 residues within 4Å: Chain M: L.24, G.25, P.26, G.46, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 14 PLIP interactions: 14 interactions with chain M Hydrogen bonds: M:G.46, M:V.47, M:D.76, M:D.76, M:T.78, M:T.79, M:T.79, M:T.80, M:T.144, M:G.389, M:N.459, M:E.475 Salt bridges: M:K.146, M:K.146 ATP.14: 18 residues within 4Å: Chain N: L.24, G.25, P.26, G.46, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 14 PLIP interactions: 14 interactions with chain N Hydrogen bonds: N:G.46, N:V.47, N:D.76, N:D.76, N:T.78, N:T.79, N:T.79, N:T.80, N:T.144, N:G.389, N:N.459, N:E.475 Salt bridges: N:K.146, N:K.146 ATP.15: 18 residues within 4Å: Chain O: L.24, G.25, P.26, G.46, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 14 PLIP interactions: 14 interactions with chain O Hydrogen bonds: O:G.46, O:V.47, O:D.76, O:D.76, O:T.78, O:T.79, O:T.79, O:T.80, O:T.144, O:G.389, O:N.459, O:E.475 Salt bridges: O:K.146, O:K.146 ATP.16: 18 residues within 4Å: Chain P: L.24, G.25, P.26, G.46, V.47, D.76, T.78, T.79, T.80, T.144, G.145, K.146, G.389, L.458, N.459, M.468, V.473, E.475 14 PLIP interactions: 14 interactions with chain P Hydrogen bonds: P:G.46, P:V.47, P:D.76, P:D.76, P:T.78, P:T.79, P:T.79, P:T.80, P:T.144, P:G.389, P:N.459, P:E.475 Salt bridges: P:K.146, P:K.146

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhao, Y. et al., CryoEM reveals the stochastic nature of individual ATP binding events in a group II chaperonin. Nat Commun (2021)

Release Date

2021-08-11

Peptides

Chaperonin: ABCDEFGHIJKLMNOP

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
U

B
A

C
B

D
C

E
D

F
E

G
F

H
G

I
H

J
I

K
J

L
K

M
L

N
M

O
N

P
O

Chaperonin