SMTL ID : 6b7o.1

Crystal structure of Legionella effector sdeD (lpg2509) H67A in complex with ADP-ribosylated Ubiquitin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

hetero-1-2-mer

Ligands

1 x AR6: [(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE(Covalent)

AR6.1: 18 residues within 4Å: Chain A: F.120, V.121, R.124, E.127, S.129, Y.134, D.171, F.177, H.187, L.188, H.190, M.191, L.194, R.196, C.197, K.198 Chain B: R.42, Q.49 24 PLIP interactions: 20 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:E.127, A:S.129, A:S.129, A:D.171, A:D.171, A:H.187, A:K.198, B:R.42, B:R.42, B:Q.49, B:Q.49 Water bridges: A:R.124, A:R.124, A:H.190, A:R.196, A:R.196, A:R.196, A:R.196, A:R.196 Salt bridges: A:R.124, A:H.190, A:H.190, A:R.196 pi-Stacking: A:F.177

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Akturk, A. et al., Mechanism of phosphoribosyl-ubiquitination mediated by a single Legionella effector. Nature (2018)

Release Date

2018-04-18

Peptides

SdeD (lpg2509) H67A: A
Polyubiquitin-C: BC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

SdeD (lpg2509) H67A

Polyubiquitin-C

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