SMTL ID : 3djf.1

Crystal Structure of Schistosoma mansoni Purine Nucleoside Phosphorylase in a complex with BCX-34

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-trimer

Ligands

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

SO4.1: 8 residues within 4Å: Chain A: G.34, S.35, R.86, H.88, N.117, A.118, S.222 Ligands: BC3.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.35, A:A.118, A:S.222 Water bridges: A:M.221 Salt bridges: A:R.86, A:H.88 SO4.6: 8 residues within 4Å: Chain C: G.34, S.35, R.86, H.88, N.117, A.118, S.222 Ligands: BC3.8 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:S.35, C:A.118, C:S.222 Water bridges: C:S.222 Salt bridges: C:R.86, C:H.88

3 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 8 residues within 4Å: Chain A: N.95, D.96, A.99, R.103, I.148, L.149, V.150, Q.154 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.103, A:R.103 Water bridges: A:Q.154 Salt bridges: A:D.96 DMS.4: 8 residues within 4Å: Chain B: N.95, D.96, A.99, R.103, I.148, L.149, V.150, Q.154 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.103, B:R.103 Water bridges: B:Q.154 Salt bridges: B:D.96 DMS.7: 7 residues within 4Å: Chain C: N.95, D.96, A.99, R.103, I.148, V.150, Q.154 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:R.103, C:R.103 Water bridges: C:Q.154 Salt bridges: C:D.96

3 x BC3: 2-amino-7-(pyridin-3-ylmethyl)-3,5-dihydro-4H-pyrrolo[3,2-d]pyrimidin-4-one(Non-covalent)

BC3.3: 13 residues within 4Å: Chain A: A.118, A.119, G.120, Y.202, E.203, V.219, G.220, M.221, T.244, N.245, H.259 Chain B: F.161 Ligands: SO4.1 10 PLIP interactions: 9 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.197, A:G.220, A:T.244, A:N.245, A:N.245 Water bridges: A:E.203, A:E.203 Salt bridges: A:E.203 pi-Stacking: A:Y.202 Hydrophobic interactions: B:F.161 BC3.5: 11 residues within 4Å: Chain B: A.118, A.119, G.120, Y.202, E.203, V.219, G.220, M.221, T.244, N.245 Chain C: F.161 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:G.220, B:N.245, B:N.245 Salt bridges: B:E.203 pi-Stacking: B:Y.202 Hydrophobic interactions: C:F.161 BC3.8: 15 residues within 4Å: Chain A: F.161 Chain C: A.118, A.119, G.120, N.197, Y.202, E.203, V.219, G.220, M.221, T.244, N.245, H.259, V.262 Ligands: SO4.6 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:N.197, C:Y.202, C:N.245, C:N.245 Water bridges: C:E.203, C:E.203 Salt bridges: C:E.203 pi-Stacking: C:Y.202

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Castilho, M.S. et al., Structural basis for selective inhibition of purine nucleoside phosphorylase from Schistosoma mansoni: kinetic and structural studies. Bioorg.Med.Chem. (2010)

Release Date

2009-06-30

Peptides

Purine-nucleoside phosphorylase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Purine-nucleoside phosphorylase

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