SMTL ID : 3l85.1

Crystal structure of human NUDT5 complexed with 8-oxo-dGMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x 8OG: 8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE(Non-covalent)

8OG.1: 9 residues within 4Å: Chain A: W.33, E.34 Chain B: W.15, V.16, R.38, R.71, A.83, G.84, E.153 20 PLIP interactions: 14 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:W.15 Hydrogen bonds: B:R.38, B:R.38, B:A.83, B:A.83, B:E.153, A:E.34, A:E.34, A:E.34 Water bridges: B:R.71, B:R.71, B:A.83, B:E.103 Salt bridges: B:R.71 pi-Stacking: B:W.15, B:W.15, B:W.15, A:W.33, A:W.33, A:W.33 8OG.2: 5 residues within 4Å: Chain A: W.15 Chain B: T.32, W.33, E.34, G.122 11 PLIP interactions: 3 interactions with chain A, 8 interactions with chain B pi-Stacking: A:W.15, A:W.15, A:W.15, B:W.33, B:W.33, B:W.33 Hydrogen bonds: B:E.34, B:E.34, B:E.34 pi-Cation interactions: B:W.33, B:W.33

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arimori, T. et al., Diverse substrate recognition and hydrolysis mechanisms of human NUDT5. Nucleic Acids Res. (2011)

Release Date

2011-01-12

Peptides

ADP-sugar pyrophosphatase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ADP-sugar pyrophosphatase

Related Entries With Identical Sequence