SMTL ID : 3p9f.1

Urate oxidase-azaxanthine-azide ternary complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-tetramer

Ligands

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

AZA.1: 13 residues within 4Å: Chain A: F.160, L.171, R.177, S.227, V.228, Q.229, N.255 Chain B: Y.9, I.55, A.57, T.58, D.59 Ligands: AZI.2 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.177, A:R.177, A:V.228, A:Q.229, A:Q.229, A:N.255, B:T.58, B:D.59 pi-Stacking: A:F.160, A:F.160 AZA.5: 13 residues within 4Å: Chain A: Y.9, I.55, A.57, T.58, D.59 Chain B: F.160, L.171, R.177, S.227, V.228, Q.229, N.255 Ligands: AZI.6 10 PLIP interactions: 8 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.177, B:R.177, B:V.228, B:Q.229, B:Q.229, B:N.255, A:T.58, A:D.59 pi-Stacking: B:F.160, B:F.160 AZA.9: 13 residues within 4Å: Chain C: F.160, L.171, R.177, S.227, V.228, Q.229, N.255 Chain D: Y.9, I.55, A.57, T.58, D.59 Ligands: AZI.10 10 PLIP interactions: 2 interactions with chain D, 8 interactions with chain C Hydrogen bonds: D:T.58, D:D.59, C:R.177, C:R.177, C:V.228, C:Q.229, C:Q.229, C:N.255 pi-Stacking: C:F.160, C:F.160 AZA.13: 13 residues within 4Å: Chain C: Y.9, I.55, A.57, T.58, D.59 Chain D: F.160, L.171, R.177, S.227, V.228, Q.229, N.255 Ligands: AZI.14 10 PLIP interactions: 8 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:R.177, D:R.177, D:V.228, D:Q.229, D:Q.229, D:N.255, C:T.58, C:D.59 pi-Stacking: D:F.160, D:F.160

8 x AZI: AZIDE ION(Non-covalent)

AZI.2: 7 residues within 4Å: Chain A: N.255, H.257, G.287, I.289 Chain B: K.11, T.58 Ligands: AZA.1 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:K.11, B:K.11, B:T.58, A:N.255 AZI.3: 4 residues within 4Å: Chain A: A.6, A.7, R.8 Chain B: K.290 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.6, A:R.8, A:R.8 Water bridges: A:A.7 AZI.6: 7 residues within 4Å: Chain A: K.11, T.58 Chain B: N.255, H.257, G.287, I.289 Ligands: AZA.5 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:K.11, A:T.58, B:N.255, B:H.257 AZI.7: 4 residues within 4Å: Chain A: K.290 Chain B: A.6, A.7, R.8 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.8, B:R.8, B:R.8 Water bridges: B:A.7 AZI.10: 7 residues within 4Å: Chain C: N.255, H.257, G.287, I.289 Chain D: K.11, T.58 Ligands: AZA.9 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:K.11, D:T.58, C:N.255 AZI.11: 4 residues within 4Å: Chain C: A.6, A.7, R.8 Chain D: K.290 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:A.6, C:R.8, C:R.8, C:E.40 Water bridges: C:A.7, D:T.292 AZI.14: 7 residues within 4Å: Chain C: K.11, T.58 Chain D: N.255, H.257, G.287, I.289 Ligands: AZA.13 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:N.255, D:H.257, C:K.11 AZI.15: 4 residues within 4Å: Chain C: K.290 Chain D: A.6, A.7, R.8 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:R.8, D:R.8 Water bridges: D:A.7, C:T.292

4 x NA: SODIUM ION(Non-functional Binders)

NA.4: 5 residues within 4Å: Chain A: I.89, Y.92, N.93, I.95, E.137 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.95, A:H.96, A:E.137 NA.8: 5 residues within 4Å: Chain B: I.89, Y.92, N.93, I.95, E.137 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:I.89, B:I.95, B:H.96 NA.12: 5 residues within 4Å: Chain C: I.89, Y.92, N.93, I.95, E.137 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:I.95, C:H.96 NA.16: 5 residues within 4Å: Chain D: I.89, Y.92, N.93, I.95, E.137 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:I.95, D:E.137

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gabison, L. et al., Azide and cyanide have different inhibition modes of urate oxidase. To be Published

Release Date

2011-09-28

Peptides

Uricase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Uricase

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