SMTL ID : 8dms.2 (1 other biounit)

Crystal structure of Legionella pneumophila macrodomain MavL in complex with ubiquitin vinyl methyl ester soaked with ADP-ribose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

hetero-1-1-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(Non-covalent)

AR6.1: 18 residues within 4Å: Chain A: E.71, H.106, G.185, G.187, T.188, G.189, C.190, F.191, K.200, P.228, Y.229, A.277, W.278, D.279, N.286, T.295, D.296, D.297 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:V.68, A:G.185, A:G.187, A:T.188, A:G.189, A:C.190, A:F.191, A:K.200, A:K.200, A:D.279, A:N.286, A:D.296, A:D.297 Water bridges: A:T.295, A:D.297 pi-Stacking: A:H.106, A:Y.229, A:Y.229

1 x GVE: METHYL 4-AMINOBUTANOATE(Covalent)

GVE.2: 6 residues within 4Å: Chain A: E.71, G.189, C.190, Y.196 Chain B: R.74, G.75 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.71, A:E.71

1 x FLC: CITRATE ANION(Non-covalent)

FLC.3: 3 residues within 4Å: Chain B: R.42, Q.49, R.72 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.49 Salt bridges: B:R.42, B:R.42, B:R.72

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Z. et al., Structure of Legionella pneumophila macrodomain MavL in complex with ubiquitin vinyl methyl ester soaked with ADP-ribose. To Be Published

Release Date

2023-07-12

Peptides

MavL: A
Ubiquitin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

MavL

Ubiquitin

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