SMTL ID : 5ayj.1

Hyperthermostable mutant of Bacillus sp. TB-90 Urate Oxidase - R298C

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-tetramer

Ligands

4 x MUA: 9-METHYL URIC ACID(Non-covalent)

MUA.1: 14 residues within 4Å: Chain A: F.183, L.194, R.200, S.247, I.248, Q.249, N.275, Q.303 Chain B: Y.10, K.12, V.69, A.71, T.72, D.73 12 PLIP interactions: 9 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:R.200, A:R.200, A:I.248, A:Q.249, A:Q.249, A:N.275, A:Q.303, B:T.72, B:T.72, B:D.73 pi-Stacking: A:F.183, A:F.183 MUA.4: 14 residues within 4Å: Chain A: Y.10, K.12, V.69, A.71, T.72, D.73 Chain B: F.183, L.194, R.200, S.247, I.248, Q.249, N.275, Q.303 12 PLIP interactions: 4 interactions with chain A, 8 interactions with chain B Hydrogen bonds: A:T.72, A:T.72, A:D.73, B:R.200, B:R.200, B:I.248, B:Q.249, B:Q.249, B:N.275, B:Q.303 Water bridges: A:K.12 pi-Stacking: B:F.183 MUA.9: 14 residues within 4Å: Chain C: F.183, L.194, R.200, S.247, I.248, Q.249, N.275, Q.303 Chain D: Y.10, K.12, V.69, A.71, T.72, D.73 13 PLIP interactions: 8 interactions with chain C, 5 interactions with chain D Hydrogen bonds: C:R.200, C:R.200, C:I.248, C:Q.249, C:Q.249, C:N.275, C:Q.303, D:T.72, D:D.73 pi-Stacking: C:F.183 Water bridges: D:T.72, D:T.72, D:T.72 MUA.13: 14 residues within 4Å: Chain C: Y.10, K.12, V.69, A.71, T.72, D.73 Chain D: F.183, L.194, R.200, S.247, I.248, Q.249, N.275, Q.303 13 PLIP interactions: 4 interactions with chain C, 9 interactions with chain D Hydrogen bonds: C:T.72, C:T.72, C:T.72, C:D.73, D:R.200, D:R.200, D:I.248, D:Q.249, D:Q.249, D:N.275, D:Q.303 pi-Stacking: D:F.183, D:F.183

6 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.2: 8 residues within 4Å: Chain A: K.49, S.51, I.115 Chain B: E.272, Q.274, Y.300, F.302, C.304 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.49 P6G.5: 6 residues within 4Å: Chain A: Q.274, Y.300, F.302, C.304 Chain B: K.49, S.51 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:K.49, A:Y.300 P6G.6: 10 residues within 4Å: Chain B: I.115, E.117, Y.146, T.148, Y.150, Q.167, A.171, N.207, K.209, E.272 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.167, B:K.209 P6G.7: 6 residues within 4Å: Chain B: V.239, E.242, T.243, L.254, R.257, R.258 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.258, B:R.258 P6G.10: 10 residues within 4Å: Chain C: I.115, E.117, T.148, Y.150, Q.167, A.171, N.207, K.209, Y.270, E.272 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:Y.150, C:K.209, C:E.272 Hydrogen bonds: C:K.209 P6G.12: 7 residues within 4Å: Chain C: E.272, Q.274, Y.300, F.302, C.304 Chain D: K.49, S.51 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:K.49, C:Q.274, C:Y.300

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

SO4.3: 4 residues within 4Å: Chain A: P.35, F.36, E.230, R.233 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.233 SO4.8: 3 residues within 4Å: Chain B: F.36, E.230, R.233 2 PLIP interactions: 2 interactions with chain B Water bridges: B:G.38 Salt bridges: B:R.233 SO4.11: 3 residues within 4Å: Chain C: F.36, E.230, R.233 2 PLIP interactions: 2 interactions with chain C Water bridges: C:G.38 Salt bridges: C:R.233 SO4.14: 3 residues within 4Å: Chain D: F.36, E.230, R.233 2 PLIP interactions: 2 interactions with chain D Water bridges: D:G.38 Salt bridges: D:R.233

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hibi, T. et al., Hyperstabilization of Tetrameric Bacillus sp. TB-90 Urate Oxidase by Introducing Disulfide Bonds through Structural Plasticity. Biochemistry (2016)

Release Date

2016-01-20

Peptides

Uric acid degradation bifunctional protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Uric acid degradation bifunctional protein