SMTL ID : 5yja.1

Crystal structure of highly active BTUO mutant P287G without dehydration

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-tetramer

Ligands

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

AZA.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, V.69, A.71, T.72, D.73 Ligands: OXY.2 11 PLIP interactions: 9 interactions with chain A, 2 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:D.73 pi-Stacking: A:F.183, A:F.183 AZA.4: 14 residues within 4Å: Chain A: Y.10, 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 Ligands: OXY.5 13 PLIP interactions: 9 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:R.200, B:R.200, B:I.248, B:Q.249, B:Q.249, B:N.275, B:Q.303, A:T.72, A:D.73 pi-Stacking: B:F.183, B:F.183 Water bridges: A:K.12, A:T.72 AZA.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, V.69, A.71, T.72, D.73 Ligands: OXY.10 11 PLIP interactions: 9 interactions with chain C, 2 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, C:F.183 AZA.13: 14 residues within 4Å: Chain C: Y.10, 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 Ligands: OXY.14 12 PLIP interactions: 9 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:R.200, D:R.200, D:I.248, D:Q.249, D:Q.249, D:N.275, D:Q.303, C:T.72, C:D.73 pi-Stacking: D:F.183, D:F.183 Water bridges: C:K.12

4 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.2: 6 residues within 4Å: Chain A: I.248, N.275, G.301, Q.303 Chain B: T.72 Ligands: AZA.1 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:T.72, A:N.275, A:G.301, A:Q.303 Water bridges: B:K.12 OXY.5: 7 residues within 4Å: Chain A: K.12, T.72 Chain B: I.248, N.275, G.301, Q.303 Ligands: AZA.4 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:N.275, B:G.301, B:Q.303, A:T.72 Water bridges: A:K.12, A:K.12, A:K.12 OXY.10: 7 residues within 4Å: Chain C: I.248, N.275, G.301, Q.303 Chain D: K.12, T.72 Ligands: AZA.9 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:N.275, C:G.301, C:Q.303, D:T.72 OXY.14: 6 residues within 4Å: Chain C: T.72 Chain D: I.248, N.275, G.301, Q.303 Ligands: AZA.13 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain D Hydrogen bonds: C:T.72, D:N.275, D:G.301, D:Q.303 Water bridges: C:K.12

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

SO4.3: 2 residues within 4Å: Chain A: R.297 Chain C: R.297 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C Salt bridges: A:R.297, C:R.297 SO4.6: 2 residues within 4Å: Chain B: R.297 Chain D: R.297 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Salt bridges: B:R.297, D:R.297

2 x K: POTASSIUM ION(Non-covalent)

K.7: 6 residues within 4Å: Chain B: T.30, I.31, P.32, S.34, P.35 Chain C: R.132 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:I.31, B:S.34 K.11: 6 residues within 4Å: Chain B: R.132 Chain C: T.30, I.31, P.32, S.34, P.35 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:I.31, C:S.34

2 x MXE: 2-METHOXYETHANOL(Non-covalent)

MXE.8: 9 residues within 4Å: Chain B: E.118, P.120, E.145, Y.146, A.147, L.170, A.229, E.230, R.233 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.118, B:A.147 MXE.12: 9 residues within 4Å: Chain C: E.118, P.120, E.145, Y.146, A.147, L.170, A.229, E.230, R.233 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:E.118, C:A.147 Water bridges: C:R.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hibi, T. et al., Flexibility of a Distal Interface Loop Modulates Water Network in the Active Site of Bacillus sp. TB-90 Urate Oxidase. to be published

Release Date

2018-10-10

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

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