SMTL ID : 1ovg.1

M64V PNP +MePdr

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-hexamer

Ligands

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

PO4.1: 7 residues within 4Å: Chain A: G.20, R.87, V.88, G.89, S.90 Chain D: R.43 Ligands: MDR.2 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:G.20, A:D.21, A:S.90, A:S.90 Water bridges: A:E.181 Salt bridges: A:R.87, D:R.43 PO4.3: 7 residues within 4Å: Chain B: P.19, G.20, R.87, G.89, S.90 Chain F: R.43 Ligands: MDR.4 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain F Hydrogen bonds: B:G.20, B:V.88, B:S.90, B:S.90 Water bridges: B:D.21, B:D.21 Salt bridges: B:R.87, F:R.43 PO4.5: 7 residues within 4Å: Chain C: P.19, G.20, R.87, G.89, S.90 Chain E: R.43 Ligands: MDR.6 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain E Hydrogen bonds: C:G.20, C:V.88, C:S.90, C:S.90 Water bridges: 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, R.87, V.88, G.89, S.90 Ligands: MDR.8 7 PLIP interactions: 1 interactions with chain A, 6 interactions with chain D Salt bridges: A:R.43, D:R.87 Hydrogen bonds: D:G.20, D:D.21, D:S.90, D:S.90 Water bridges: D:E.181 PO4.9: 7 residues within 4Å: Chain C: R.43 Chain E: P.19, G.20, R.87, G.89, S.90 Ligands: MDR.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: MDR.12 7 PLIP interactions: 1 interactions with chain B, 6 interactions with chain F Salt bridges: B:R.43, F:R.87 Hydrogen bonds: F:G.20, F:V.88, F:S.90, F:S.90 Water bridges: F:S.90

6 x MDR: 9-(2-DEOXY-BETA-D-RIBOFURANOSYL)-6-METHYLPURINE(Non-covalent)

MDR.2: 14 residues within 4Å: Chain A: R.87, S.90, C.91, G.92, F.159, V.178, E.179, M.180, E.181, D.204, I.206 Chain D: H.4, R.43 Ligands: PO4.1 9 PLIP interactions: 8 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: A:E.179, A:I.206 Hydrogen bonds: A:R.87, A:M.180, A:E.181, D:H.4 Water bridges: A:S.203 pi-Stacking: A:F.159, A:F.159 MDR.4: 14 residues within 4Å: Chain B: V.64, S.90, C.91, G.92, F.159, V.178, E.179, M.180, E.181, D.204, I.206 Chain F: H.4, R.43 Ligands: PO4.3 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain F Hydrophobic interactions: B:E.179, B:I.206 Hydrogen bonds: B:E.181, F:H.4, F:R.43 MDR.6: 13 residues within 4Å: Chain C: S.90, C.91, 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 6 PLIP interactions: 4 interactions with chain C, 2 interactions with chain E Hydrophobic interactions: C:E.179, C:I.206 Hydrogen bonds: C:E.181, E:H.4, E:R.43 Water bridges: C:S.90 MDR.8: 14 residues within 4Å: Chain A: H.4, R.43 Chain D: R.87, S.90, C.91, G.92, F.159, V.178, E.179, M.180, E.181, D.204, I.206 Ligands: PO4.7 9 PLIP interactions: 8 interactions with chain D, 1 interactions with chain A Hydrophobic interactions: D:E.179, D:I.206 Hydrogen bonds: D:R.87, D:M.180, D:E.181, A:H.4 Water bridges: D:S.203 pi-Stacking: D:F.159, D:F.159 MDR.10: 14 residues within 4Å: Chain C: H.4, R.43 Chain E: V.64, S.90, C.91, G.92, F.159, V.178, E.179, M.180, E.181, D.204, I.206 Ligands: PO4.9 5 PLIP interactions: 3 interactions with chain E, 2 interactions with chain C Hydrophobic interactions: E:E.179, E:I.206 Hydrogen bonds: E:E.181, C:H.4, C:R.43 MDR.12: 13 residues within 4Å: Chain B: H.4, R.43 Chain F: S.90, C.91, G.92, F.159, V.178, E.179, M.180, E.181, D.204, I.206 Ligands: PO4.11 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain F Hydrogen bonds: B:H.4, B:R.43, F:E.181 Hydrophobic interactions: F:E.179, F:I.206 Water bridges: F:S.90

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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