SMTL ID : 3iex.1

Schistosoma Purine nucleoside phosphorylase in complex with guanosine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-trimer

Ligands

2 x GMP: GUANOSINE(Non-covalent)

GMP.1: 16 residues within 4Å: Chain A: Y.90, 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 Chain B: F.161 Ligands: SO4.2 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:Y.90, A:N.197, A:Y.202, A:G.220, A:M.221, A:T.244, A:N.245, A:H.259 Water bridges: A:Y.194 Salt bridges: A:E.203 pi-Stacking: A:Y.202, A:Y.202 GMP.8: 17 residues within 4Å: Chain A: F.161 Chain C: Y.90, A.118, A.119, G.120, N.197, Y.202, E.203, V.219, G.220, M.221, S.222, T.244, N.245, H.259, V.262 Ligands: SO4.7 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:Y.90, C:Y.90, C:G.120, C:N.197, C:Y.202, C:Y.202, C:G.220, C:M.221, C:N.245 Water bridges: C:A.118, C:E.203, C:E.203 Salt bridges: C:E.203 pi-Stacking: C:Y.202

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

SO4.2: 7 residues within 4Å: Chain A: S.35, R.86, H.88, N.117, A.118, S.222 Ligands: GMP.1 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.35, A:A.118, A:A.118, A:S.222 Water bridges: A:S.222 Salt bridges: A:R.86, A:H.88 SO4.7: 8 residues within 4Å: Chain C: G.34, S.35, R.86, H.88, N.117, A.118, S.222 Ligands: GMP.8 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:S.35, C:A.118, C:S.222 Salt bridges: C:R.86, C:H.88

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

DMS.3: 8 residues within 4Å: Chain A: N.95, D.96, A.99, R.103, I.148, L.149, V.150, Q.154 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.103, A:R.103 Water bridges: A:Q.154, A:Q.154, A:Q.154 Salt bridges: A:D.96 DMS.4: 7 residues within 4Å: Chain A: L.140, G.144 Chain B: L.140, G.144 Chain C: L.140, L.143, G.144 No protein-ligand interaction detected (PLIP) DMS.6: 7 residues within 4Å: Chain B: N.95, D.96, A.99, R.103, I.148, V.150, Q.154 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.103, B:R.103 Water bridges: B:Q.154, B:Q.154 Salt bridges: B:D.96 DMS.9: 7 residues within 4Å: Chain C: N.95, D.96, A.99, R.103, I.148, V.150, Q.154 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:R.103, C:R.103 Water bridges: C:Q.154, C:Q.154, C:Q.154 Salt bridges: C:D.96

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.5: 9 residues within 4Å: Chain B: A.118, A.119, G.120, Y.202, E.203, V.219, G.220, M.221, N.245 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.120, B:N.245 Water bridges: B:N.245

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

2010-03-16

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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