SMTL ID : 2pga.1

X-ray Structure of the Uridine Phosphorylase From SALMONELLA TYPHIMURIUM in Complex with Inhibitor and Phosphate and Potassium Ion at 1.74 A Resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.74 Å

Oligo State

homo-hexamer

Ligands

3 x K: POTASSIUM ION(Non-covalent)

K.1: 6 residues within 4Å: Chain A: E.49, I.69, S.73 Chain F: E.49, I.69, S.73 3 PLIP interactions: 2 interactions with chain F, 1 interactions with chain A Metal complexes: F:E.49, F:I.69, A:E.49 K.3: 6 residues within 4Å: Chain B: E.49, I.69, S.73 Chain D: E.49, I.69, S.73 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain D Metal complexes: B:E.49, B:I.69, D:E.49, D:I.69 K.7: 6 residues within 4Å: Chain C: E.49, I.69, S.73 Chain E: E.49, I.69, S.73 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:E.49

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

PO4.2: 10 residues within 4Å: Chain B: P.25, G.26, D.27, R.30, R.91, I.92, G.93, T.94 Chain D: R.48 Ligands: ANU.4 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:G.26, B:D.27, B:T.94, B:T.94 Salt bridges: B:R.30, B:R.91, D:R.48 PO4.5: 9 residues within 4Å: Chain B: R.48 Chain D: P.25, G.26, R.30, R.91, I.92, G.93, T.94 Ligands: ANU.6 6 PLIP interactions: 5 interactions with chain D, 1 interactions with chain B Hydrogen bonds: D:G.26, D:T.94, D:E.198 Salt bridges: D:R.30, D:R.91, B:R.48 PO4.8: 8 residues within 4Å: Chain A: R.48 Chain F: P.25, G.26, R.91, I.92, G.93, T.94 Ligands: ANU.9 6 PLIP interactions: 5 interactions with chain F, 1 interactions with chain A Hydrogen bonds: F:G.26, F:D.27, F:T.94 Water bridges: F:I.92 Salt bridges: F:R.91, A:R.48

3 x ANU: 2,2'-Anhydro-(1-beta-D-arabinofuranosyl)uracil(Non-covalent)

ANU.4: 15 residues within 4Å: Chain B: I.69, T.94, T.95, G.96, F.162, Q.166, R.168, Y.195, E.196, M.197, E.198, I.220 Chain D: H.8, R.48 Ligands: PO4.2 10 PLIP interactions: 8 interactions with chain B, 2 interactions with chain D Hydrophobic interactions: B:F.162, B:I.220 Hydrogen bonds: B:T.94, B:G.96, B:Q.166, B:R.168, B:R.168, B:E.198, D:H.8, D:R.48 ANU.6: 15 residues within 4Å: Chain B: H.8, R.48 Chain D: I.69, T.94, T.95, G.96, F.162, Q.166, R.168, Y.195, E.196, M.197, E.198, I.220 Ligands: PO4.5 11 PLIP interactions: 8 interactions with chain D, 3 interactions with chain B Hydrophobic interactions: D:F.162, D:I.220 Hydrogen bonds: D:T.94, D:G.96, D:Q.166, D:R.168, D:R.168, D:E.198, B:H.8 Water bridges: B:R.48, B:R.48 ANU.9: 14 residues within 4Å: Chain A: F.7, H.8, R.48 Chain F: I.69, T.94, G.96, F.162, Q.166, R.168, Y.195, E.196, M.197, E.198 Ligands: PO4.8 9 PLIP interactions: 6 interactions with chain F, 3 interactions with chain A Hydrophobic interactions: F:F.162 Hydrogen bonds: F:G.96, F:Q.166, F:R.168, F:R.168, F:E.198, A:H.8, A:R.48, A:R.48

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Timofeev, V.I. et al., X-ray Structure of the Uridine Phosphorylase From SALMONELLA TYPHIMURIUM in Complex with Inhibitor and Phosphate and Potassium Ion at 1.74 A Resolution. To be Published

Release Date

2008-04-15

Peptides

Uridine phosphorylase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Uridine phosphorylase

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