SMTL ID : 5lau.1

Oceanobacillus iheyensis macrodomain mutant G37V with ADPR

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.35 Å

Oligo State

monomer

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: 20 residues within 4Å: Chain A: G.38, D.39, I.40, A.51, N.53, G.59, V.60, G.61, V.62, D.63, A.65, S.151, S.153, T.154, G.155, V.156, Y.157, V.187, F.189, D.193 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:D.39, A:D.39, A:I.40, A:N.53, A:N.53, A:V.60, A:V.62, A:D.63, A:D.63, A:S.153, A:S.153, A:T.154, A:G.155, A:V.156, A:Y.157, A:Y.157, A:D.193 Water bridges: A:V.60, A:D.63, A:F.189, A:F.189, A:F.189, A:F.189, A:S.190 pi-Stacking: A:F.189

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: E.43, T.44, T.45, P.105, S.106, R.107 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.43, A:R.107, A:R.107 GOL.3: 3 residues within 4Å: Chain A: S.55, R.82, E.90 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.82, A:R.82, A:E.90 Water bridges: A:G.88, A:E.89

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zapata-Perez, R. et al., Structural and functional analysis of Oceanobacillus iheyensis macrodomain reveals a network of waters involved in substrate binding and catalysis. Open Biol (2017)

Release Date

2017-05-03

Peptides

MacroD-type macrodomain: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

MacroD-type macrodomain