SMTL ID : 2oec.1

Crystal structure of the uridine phosphorylase from Salmonella typhimurium in complex with 2,2'-anhydrouridine and potassium ion at 2.194A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.19 Å

Oligo State

homo-hexamer

Ligands

3 x K: POTASSIUM ION(Non-covalent)

K.1: 6 residues within 4Å: Chain A: E.48, I.68, S.72 Chain B: E.48, I.68, S.72 No protein-ligand interaction detected (PLIP) K.5: 6 residues within 4Å: Chain C: E.48, I.68, S.72 Chain D: E.48, I.68, S.72 No protein-ligand interaction detected (PLIP) K.7: 6 residues within 4Å: Chain E: E.48, I.68, S.72 Chain F: E.48, I.68, S.72 No protein-ligand interaction detected (PLIP)

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

ANU.2: 13 residues within 4Å: Chain A: H.7, R.47 Chain B: I.68, R.90, T.93, T.94, G.95, F.161, Q.165, Y.194, E.195, M.196, E.197 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.90, B:T.93, B:G.95, B:Q.165, B:R.167, B:E.197, A:H.7 Water bridges: B:T.93 ANU.8: 14 residues within 4Å: Chain E: F.6, H.7, R.47 Chain F: I.68, T.93, T.94, G.95, F.161, Q.165, R.167, E.195, M.196, E.197 Ligands: GOL.9 5 PLIP interactions: 4 interactions with chain F, 1 interactions with chain E Hydrogen bonds: F:Q.165, F:R.167, F:R.167, F:E.197, E:H.7

3 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.3: 2 residues within 4Å: Chain B: S.3, D.4 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.4, B:D.4 1PE.4: 5 residues within 4Å: Chain B: R.177, K.180 Chain C: R.177, K.180 Chain E: R.177 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.177, B:R.177 1PE.6: 3 residues within 4Å: Chain A: K.180 Chain D: R.177, K.180 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 10 residues within 4Å: Chain E: R.47 Chain F: G.25, D.26, R.29, R.90, I.91, G.92, T.93, E.197 Ligands: ANU.8 7 PLIP interactions: 6 interactions with chain F, 1 interactions with chain E Hydrogen bonds: F:G.25, F:D.26, F:R.29, F:R.90, F:T.93, F:E.197, E:R.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Timofeev, V.I. et al., Crystal structure of the uridine phosphorylase from Salmonella typhimurium in complex with 2,2'-anhydrouridine and potassium ion at 2.194A resolution. To be Published

Release Date

2008-01-01

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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