SMTL ID : 1ov6.1

M64V PNP + ALLO

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-hexamer

Ligands

6 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 7 residues within 4Å: Chain A: G.20, D.21, R.87, G.89, S.90 Chain D: R.43 Ligands: DBM.2 6 PLIP interactions: 1 interactions with chain D, 5 interactions with chain A Salt bridges: D:R.43, A:R.87 Hydrogen bonds: A:G.20, A:D.21, A:S.90, A:S.90 PO4.3: 7 residues within 4Å: Chain B: P.19, G.20, R.87, G.89, S.90 Chain F: R.43 Ligands: DBM.4 8 PLIP interactions: 1 interactions with chain F, 7 interactions with chain B Salt bridges: F:R.43, B:R.87 Hydrogen bonds: B:G.20, B:V.88, B:S.90, B:S.90 Water bridges: B:D.21, B:D.21 PO4.5: 7 residues within 4Å: Chain C: P.19, G.20, R.87, G.89, S.90 Chain E: R.43 Ligands: DBM.6 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain E Hydrogen bonds: C:G.20, C:V.88, C:S.90, C:S.90 Salt bridges: C:R.87, E:R.43 PO4.7: 7 residues within 4Å: Chain A: R.43 Chain D: G.20, D.21, R.87, G.89, S.90 Ligands: DBM.8 6 PLIP interactions: 5 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:G.20, D:D.21, D:S.90, D:S.90 Salt bridges: D:R.87, A:R.43 PO4.9: 7 residues within 4Å: Chain C: R.43 Chain E: P.19, G.20, R.87, G.89, S.90 Ligands: DBM.10 8 PLIP interactions: 7 interactions with chain E, 1 interactions with chain C Hydrogen bonds: E:G.20, E:V.88, E:S.90, E:S.90 Water bridges: E:D.21, E:D.21 Salt bridges: E:R.87, C:R.43 PO4.11: 7 residues within 4Å: Chain B: R.43 Chain F: P.19, G.20, R.87, G.89, S.90 Ligands: DBM.12 6 PLIP interactions: 5 interactions with chain F, 1 interactions with chain B Hydrogen bonds: F:G.20, F:V.88, F:S.90, F:S.90 Salt bridges: F:R.87, B:R.43

6 x DBM: 9-(6-DEOXY-BETA-D-ALLOFURANOSYL)-6-METHYLPURINE(Non-covalent)

DBM.2: 12 residues within 4Å: Chain A: S.90, C.91, G.92, F.159, F.167, V.178, E.179, M.180, S.203, D.204 Chain D: R.43 Ligands: PO4.1 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: A:F.167 Hydrogen bonds: A:R.87, A:S.90, A:S.203, A:S.203, D:R.43 DBM.4: 11 residues within 4Å: Chain B: R.87, S.90, C.91, G.92, F.159, V.178, E.179, M.180, S.203 Chain F: R.43 Ligands: PO4.3 4 PLIP interactions: 1 interactions with chain F, 3 interactions with chain B Hydrogen bonds: F:R.43, B:R.87, B:S.90, B:S.203 DBM.6: 13 residues within 4Å: Chain C: R.87, S.90, G.92, F.159, V.178, E.179, M.180, E.181, D.204, I.206 Chain E: H.4, R.43 Ligands: PO4.5 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain E Hydrophobic interactions: C:I.206 Hydrogen bonds: C:R.87, C:S.90, C:M.180, E:H.4 DBM.8: 12 residues within 4Å: Chain A: R.43 Chain D: S.90, C.91, G.92, F.159, F.167, V.178, E.179, M.180, S.203, D.204 Ligands: PO4.7 6 PLIP interactions: 5 interactions with chain D, 1 interactions with chain A Hydrophobic interactions: D:F.167 Hydrogen bonds: D:R.87, D:S.90, D:S.203, D:S.203, A:R.43 DBM.10: 11 residues within 4Å: Chain C: R.43 Chain E: R.87, S.90, C.91, G.92, F.159, V.178, E.179, M.180, S.203 Ligands: PO4.9 4 PLIP interactions: 3 interactions with chain E, 1 interactions with chain C Hydrogen bonds: E:R.87, E:S.90, E:S.203, C:R.43 DBM.12: 13 residues within 4Å: Chain B: H.4, R.43 Chain F: R.87, S.90, G.92, F.159, V.178, E.179, M.180, E.181, D.204, I.206 Ligands: PO4.11 5 PLIP interactions: 4 interactions with chain F, 1 interactions with chain B Hydrophobic interactions: F:I.206 Hydrogen bonds: F:R.87, F:S.90, F:M.180, B:H.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bennett, E.M. et al., Designer gene therapy using an Escherichia coli purine nucleoside phosphorylase/prodrug system. Chem.Biol. (2003)

Release Date

2004-02-17

Peptides

Purine nucleoside phosphorylase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

Purine nucleoside phosphorylase

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