SMTL ID : 3lqw.1

Crystal structure of deoxyuridine 5-triphosphate nucleotidohydrolase from Entamoeba histolytica

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

homo-trimer

Ligands

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 5 residues within 4Å: Chain A: H.116, S.117, N.118, E.119 Chain C: E.62 7 PLIP interactions: 3 interactions with chain C, 4 interactions with chain A Water bridges: C:H.61, C:R.63, C:R.63, A:H.116 Hydrogen bonds: A:N.118, A:N.118, A:E.119 EDO.3: 5 residues within 4Å: Chain A: E.62 Chain B: H.116, S.117, N.118, E.119 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:N.118, B:N.118, B:E.119 Water bridges: B:H.116, A:H.61, A:R.63, A:R.63 EDO.5: 5 residues within 4Å: Chain B: E.62 Chain C: H.116, S.117, N.118, E.119 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain C Water bridges: B:H.61, B:R.63, B:R.63, C:H.116 Hydrogen bonds: C:N.118, C:N.118, C:E.119

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 14 residues within 4Å: Chain A: P.84, D.95, V.96, G.97, A.98 Chain B: P.84, D.95, V.96 Chain C: D.95, V.96, G.97, A.98 Ligands: GOL.4, GOL.6 12 PLIP interactions: 7 interactions with chain A, 2 interactions with chain C, 3 interactions with chain B Hydrogen bonds: A:D.95, A:A.98, C:A.98 Water bridges: A:R.81, A:D.95, A:D.95, A:V.96, A:A.98, C:A.98, B:R.81, B:D.95, B:V.96 GOL.4: 14 residues within 4Å: Chain A: D.95, V.96, G.97, A.98 Chain B: P.84, D.95, V.96, G.97, A.98 Chain C: P.84, D.95, V.96 Ligands: GOL.2, GOL.6 12 PLIP interactions: 2 interactions with chain A, 3 interactions with chain C, 7 interactions with chain B Hydrogen bonds: A:A.98, B:D.95, B:A.98 Water bridges: A:A.98, C:R.81, C:D.95, C:V.96, B:R.81, B:D.95, B:D.95, B:V.96, B:A.98 GOL.6: 14 residues within 4Å: Chain A: P.84, D.95, V.96 Chain B: D.95, V.96, G.97, A.98 Chain C: P.84, D.95, V.96, G.97, A.98 Ligands: GOL.2, GOL.4 12 PLIP interactions: 7 interactions with chain C, 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: C:D.95, C:A.98, B:A.98 Water bridges: C:R.81, C:D.95, C:D.95, C:V.96, C:A.98, A:R.81, A:D.95, A:V.96, B:A.98

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abendroth, J. et al., Crystal structure of deoxyuridine 5-triphosphate nucleotidohydrolase from Entamoeba histolytica. To be Published

Release Date

2010-03-09

Peptides

Deoxyuridine 5'-triphosphate nucleotidohydrolase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Deoxyuridine 5'-triphosphate nucleotidohydrolase