SMTL ID : 7ljf.1

Cryo-EM structure of the Mpa hexamer in the presence of ATP and the Pup-FabD substrate

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-hexamer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: T.300 Ligands: ATP.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.300 MG.4: 2 residues within 4Å: Chain B: T.300 Ligands: ADP.3 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.300 MG.6: 3 residues within 4Å: Chain C: K.299, T.300 Ligands: ADP.5 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.300

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

ATP.2: 18 residues within 4Å: Chain A: D.253, I.254, G.255, P.295, G.296, C.297, G.298, K.299, T.300, L.301, D.371, E.372, I.448, Y.452, G.516, A.517, Q.520 Ligands: MG.1 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:G.255, A:G.255, A:G.296, A:C.297, A:G.298, A:K.299, A:T.300, A:D.371, A:E.372, A:Q.520 Salt bridges: A:K.299

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

ADP.3: 17 residues within 4Å: Chain B: D.253, I.254, G.255, P.295, G.296, C.297, G.298, K.299, T.300, L.301, E.372, I.448, Y.452, G.516, A.517, Q.520 Ligands: MG.4 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:G.255, B:G.255, B:G.296, B:G.298, B:T.300, B:N.416, B:Q.520 Salt bridges: B:K.299 ADP.5: 17 residues within 4Å: Chain C: D.253, I.254, G.255, P.295, G.296, C.297, G.298, K.299, T.300, L.301, N.416, I.448, Y.452, G.516, A.517, Q.520 Ligands: MG.6 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:G.255, C:G.255, C:G.296, C:G.298, C:K.299, C:T.300, C:T.300, C:L.301, C:N.416, C:N.416

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yin, Y. et al., Cryo-EM structure of the Mpa hexamer in the presence of ATP and the Pup-FabD substrate. J.Biol.Chem. (2021)

Release Date

2021-05-05

Peptides

AAA ATPase forming ring-shaped complexes: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

AAA ATPase forming ring-shaped complexes