SMTL ID : 1oum.1

M64V PNP +Talo

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-hexamer

Ligands

6 x TAL: 9-(6-DEOXY-ALPHA-L-TALOFURANOSYL)-6-METHYLPURINE(Non-covalent)

TAL.1: 14 residues within 4Å: Chain A: D.21, V.64, R.87, S.90, C.91, G.92, F.159, V.178, E.179, M.180, E.181, S.203, I.206 Chain D: H.4 11 PLIP interactions: 10 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: A:V.64, A:I.206 Hydrogen bonds: A:D.21, A:R.87, A:R.87, A:S.90, A:M.180, A:S.203, D:H.4 Water bridges: A:S.90, A:S.90 TAL.3: 15 residues within 4Å: Chain B: V.64, R.87, S.90, C.91, G.92, F.159, V.178, E.179, M.180, E.181, I.206 Chain F: H.4, R.43, I.71 Ligands: PO4.2 9 PLIP interactions: 6 interactions with chain B, 3 interactions with chain F Hydrophobic interactions: B:V.64, B:I.206, F:I.71 Hydrogen bonds: B:R.87, B:R.87, B:S.90, B:M.180, F:H.4, F:R.43 TAL.5: 15 residues within 4Å: Chain C: V.64, R.87, S.90, C.91, G.92, F.159, V.178, E.179, M.180, E.181, D.204 Chain E: H.4, R.43, I.71 Ligands: PO4.4 9 PLIP interactions: 6 interactions with chain C, 3 interactions with chain E Hydrophobic interactions: C:V.64, C:F.159, E:I.71 Hydrogen bonds: C:R.87, C:S.90, C:M.180, E:H.4, E:R.43 Water bridges: C:S.90 TAL.6: 14 residues within 4Å: Chain A: H.4 Chain D: D.21, V.64, R.87, S.90, C.91, G.92, F.159, V.178, E.179, M.180, E.181, S.203, I.206 11 PLIP interactions: 10 interactions with chain D, 1 interactions with chain A Hydrophobic interactions: D:V.64, D:I.206 Hydrogen bonds: D:D.21, D:R.87, D:R.87, D:S.90, D:M.180, D:S.203, A:H.4 Water bridges: D:S.90, D:S.90 TAL.8: 15 residues within 4Å: Chain C: H.4, R.43, I.71 Chain E: V.64, R.87, S.90, C.91, G.92, F.159, V.178, E.179, M.180, E.181, I.206 Ligands: PO4.7 9 PLIP interactions: 6 interactions with chain E, 3 interactions with chain C Hydrophobic interactions: E:V.64, E:I.206, C:I.71 Hydrogen bonds: E:R.87, E:R.87, E:S.90, E:M.180, C:H.4, C:R.43 TAL.10: 15 residues within 4Å: Chain B: H.4, R.43, I.71 Chain F: V.64, R.87, S.90, C.91, G.92, F.159, V.178, E.179, M.180, E.181, D.204 Ligands: PO4.9 9 PLIP interactions: 6 interactions with chain F, 3 interactions with chain B Hydrophobic interactions: F:V.64, F:F.159, B:I.71 Hydrogen bonds: F:R.87, F:S.90, F:M.180, B:H.4, B:R.43 Water bridges: F:S.90

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

PO4.2: 8 residues within 4Å: Chain B: P.19, G.20, R.87, V.88, G.89, S.90 Chain F: R.43 Ligands: TAL.3 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 PO4.4: 11 residues within 4Å: Chain C: P.19, G.20, D.21, R.24, R.87, V.88, G.89, S.90, E.181 Chain E: R.43 Ligands: TAL.5 9 PLIP interactions: 8 interactions with chain C, 1 interactions with chain E Hydrogen bonds: C:G.20, C:D.21, C:V.88, C:S.90, C:S.90 Water bridges: C:S.90 Salt bridges: C:R.24, C:R.87, E:R.43 PO4.7: 8 residues within 4Å: Chain C: R.43 Chain E: P.19, G.20, R.87, V.88, G.89, S.90 Ligands: TAL.8 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 PO4.9: 11 residues within 4Å: Chain B: R.43 Chain F: P.19, G.20, D.21, R.24, R.87, V.88, G.89, S.90, E.181 Ligands: TAL.10 9 PLIP interactions: 8 interactions with chain F, 1 interactions with chain B Hydrogen bonds: F:G.20, F:D.21, F:V.88, F:S.90, F:S.90 Water bridges: F:S.90 Salt bridges: F:R.24, F:R.87, B:R.43

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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