SMTL ID : 8jo4.1

Cryo-EM structure of a Legionella effector complexed with actin and ATP

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

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

ATP.1: 17 residues within 4Å: Chain A: L.158, V.161, N.164, D.165, K.172, Y.178, K.181, R.183, R.185, A.240, L.242, S.243, G.244, T.245, Y.281, Y.286 Ligands: MG.2 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:N.164, A:D.165, A:Y.178, A:Y.178, A:R.183, A:R.183, A:R.185, A:L.242, A:G.244, A:T.245, A:T.246 Salt bridges: A:K.172, A:K.181, A:K.181, A:K.181, A:R.183, A:R.185 pi-Stacking: A:Y.286, A:Y.286 ATP.4: 22 residues within 4Å: Chain B: G.15, S.16, G.17, L.18, K.20, G.76, Q.139, G.158, D.159, G.160, V.161, G.184, R.212, K.215, E.216, G.303, G.304, T.305, M.307, Y.308, K.338 Ligands: CA.3 18 PLIP interactions: 18 interactions with chain B Hydrogen bonds: B:S.16, B:G.17, B:L.18, B:L.18, B:G.158, B:D.159, B:D.159, B:G.160, B:V.161, B:V.161, B:K.215, B:E.216, B:G.304, B:T.305, B:M.307 Salt bridges: B:K.20, B:K.20 pi-Stacking: B:Y.308

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: N.164, D.165 Ligands: ATP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.165

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 3 residues within 4Å: Chain B: D.13, Q.139 Ligands: ATP.4 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, T. et al., Legionella effector LnaB is a phosphoryl AMPylase that impairs phosphosignalling. Nature (2024)

Release Date

2024-05-01

Peptides

Substrate of the Dot/Icm secretion system: A
Actin, alpha skeletal muscle: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Substrate of the Dot/Icm secretion system

Actin, alpha skeletal muscle

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