SMTL ID : 2yb0.1 (1 other biounit)

The Crystal Structure of Leishmania major dUTPase in complex deoxyuridine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

homo-dimer

Ligands

2 x DUR: 2'-DEOXYURIDINE(Non-covalent)

DUR.1: 14 residues within 4Å: Chain A: Q.24, L.27, N.28, I.31, W.44, E.51, D.82, H.85, F.86, K.182, N.186 Chain B: W.63, W.64 Ligands: SO4.2 14 PLIP interactions: 13 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.31, A:H.85, A:F.86, A:F.86, B:W.64 Hydrogen bonds: A:Q.24, A:N.28, A:E.51, A:D.82, A:H.85, A:K.182, A:N.186 Water bridges: A:R.189, A:N.209 DUR.5: 13 residues within 4Å: Chain A: W.63, W.64 Chain B: Q.24, L.27, N.28, I.31, W.44, E.51, D.82, H.85, F.86, N.186 Ligands: SO4.6 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:I.31, B:H.85, B:F.86, A:W.64 Hydrogen bonds: B:Q.24, B:N.28, B:E.51, B:K.182, B:N.186 Water bridges: B:R.189

5 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 8 residues within 4Å: Chain A: R.189, Y.194, K.201 Chain B: K.62, W.64, K.65 Ligands: DUR.1, SO4.3 8 PLIP interactions: 6 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Y.194 Water bridges: A:R.189, A:R.189, A:R.189 Salt bridges: A:R.189, A:K.201, B:K.62, B:K.65 SO4.3: 6 residues within 4Å: Chain B: D.57, K.62, K.65, N.66 Ligands: SO4.2, SO4.4 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.66 Salt bridges: B:K.62, B:K.65 SO4.4: 5 residues within 4Å: Chain A: V.200, K.201, V.202 Chain B: K.65 Ligands: SO4.3 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.201, A:V.202 Salt bridges: B:K.65 SO4.6: 8 residues within 4Å: Chain A: K.62, W.64, K.65 Chain B: R.189, Y.194, K.201 Ligands: DUR.5, SO4.7 8 PLIP interactions: 3 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:W.64 Salt bridges: A:K.62, A:K.65, B:R.189, B:K.201 Water bridges: B:R.189, B:R.189, B:R.189 SO4.7: 5 residues within 4Å: Chain A: D.57, K.62, K.65, N.66 Ligands: SO4.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.66 Salt bridges: A:K.62, A:K.65

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hemsworth, G.R. et al., The Crystal Structure of the Leishmania Major Deoxyuridine Triphosphate Nucleotidohydrolase in Complex with Nucleotide Analogues, Dump, and Deoxyuridine. J.Biol.Chem. (2011)

Release Date

2011-03-16

Peptides

DUTPASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DUTPASE

Related Entries With Identical Sequence