SMTL ID : 4xfp.1

Crystal Structure of Highly Active Mutant of Bacillus sp. TB-90 Urate Oxidase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.66 Å

Oligo State

homo-tetramer

Ligands

4 x AZA: 8-AZAXANTHINE(Non-covalent)

AZA.1: 14 residues within 4Å: Chain A: F.177, L.188, R.194, S.241, I.242, Q.243, N.269, Q.297 Chain B: Y.4, V.63, A.65, T.66, D.67 Ligands: CL.2 14 PLIP interactions: 9 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:R.194, A:R.194, A:I.242, A:Q.243, A:Q.243, A:N.269, A:Q.297, B:T.66, B:D.67 pi-Stacking: A:F.177, A:F.177 Water bridges: B:K.6, B:K.6, B:T.66 AZA.4: 14 residues within 4Å: Chain A: Y.4, V.63, A.65, T.66, D.67 Chain B: F.177, L.188, R.194, S.241, I.242, Q.243, N.269, Q.297 Ligands: CL.5 13 PLIP interactions: 9 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:R.194, B:R.194, B:I.242, B:Q.243, B:Q.243, B:N.269, B:Q.297, A:T.66, A:D.67 pi-Stacking: B:F.177, B:F.177 Water bridges: A:K.6, A:T.66 AZA.6: 14 residues within 4Å: Chain C: F.177, L.188, R.194, S.241, I.242, Q.243, N.269, Q.297 Chain D: Y.4, V.63, A.65, T.66, D.67 Ligands: CL.7 13 PLIP interactions: 9 interactions with chain C, 4 interactions with chain D Hydrogen bonds: C:R.194, C:R.194, C:I.242, C:Q.243, C:Q.243, C:N.269, C:Q.297, D:T.66, D:D.67 pi-Stacking: C:F.177, C:F.177 Water bridges: D:K.6, D:T.66 AZA.9: 14 residues within 4Å: Chain C: Y.4, V.63, A.65, T.66, D.67 Chain D: F.177, L.188, R.194, S.241, I.242, Q.243, N.269, Q.297 Ligands: CL.10 14 PLIP interactions: 9 interactions with chain D, 5 interactions with chain C Hydrogen bonds: D:R.194, D:R.194, D:I.242, D:Q.243, D:Q.243, D:N.269, D:Q.297, C:T.66, C:D.67 pi-Stacking: D:F.177, D:F.177 Water bridges: C:K.6, C:K.6, C:T.66

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 6 residues within 4Å: Chain A: I.242, N.269, G.295, Q.297 Chain B: T.66 Ligands: AZA.1 Ligand excluded by PLIP CL.5: 6 residues within 4Å: Chain A: T.66 Chain B: I.242, N.269, G.295, Q.297 Ligands: AZA.4 Ligand excluded by PLIP CL.7: 6 residues within 4Å: Chain C: I.242, N.269, G.295, Q.297 Chain D: T.66 Ligands: AZA.6 Ligand excluded by PLIP CL.10: 6 residues within 4Å: Chain C: T.66 Chain D: I.242, N.269, G.295, Q.297 Ligands: AZA.9 Ligand excluded by PLIP

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 2 residues within 4Å: Chain A: R.291 Chain C: R.291 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C Salt bridges: A:R.291, C:R.291 SO4.8: 2 residues within 4Å: Chain B: R.291 Chain D: R.291 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Salt bridges: B:R.291, D:R.291

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hibi, T. et al., Glycine Substitution of Surface Proline 287 Involves Entropic Enhancement of Bacillus sp. TB-90 Uricase Activity. To be published

Release Date

2016-01-13

Peptides

Urate oxidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Urate oxidase