SMTL ID : 2zka.1

Urate oxidase complexed with 8-azaxanthine under 1.0 MPa oxygen pressure

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.61 Å

Oligo State

homo-tetramer

Ligands

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

NA.1: 5 residues within 4Å: Chain A: I.89, Y.92, N.93, I.95, E.137 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.95, A:E.137 NA.4: 5 residues within 4Å: Chain B: I.89, Y.92, N.93, I.95, E.137 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:I.95, B:H.96 NA.7: 5 residues within 4Å: Chain C: I.89, Y.92, N.93, I.95, E.137 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:I.95, C:I.95, C:H.96 NA.10: 5 residues within 4Å: Chain D: I.89, Y.92, N.93, I.95, E.137 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:I.95, D:H.96, D:E.137

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

AZA.2: 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: OXY.3 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: OXY.6 10 PLIP interactions: 2 interactions with chain A, 8 interactions with chain B Hydrogen bonds: A:T.58, A:D.59, B:R.177, B:R.177, B:V.228, B:Q.229, B:Q.229, B:N.255 pi-Stacking: B:F.160, B:F.160 AZA.8: 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: OXY.9 10 PLIP interactions: 8 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:R.177, C:R.177, C:V.228, C:Q.229, C:Q.229, C:N.255, D:T.58, D:D.59 pi-Stacking: C:F.160, C:F.160 AZA.11: 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: OXY.12 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

4 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.3: 6 residues within 4Å: Chain A: N.255, H.257, G.287, I.289 Chain B: T.58 Ligands: AZA.2 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.255, A:G.287, B:T.58 OXY.6: 6 residues within 4Å: Chain A: T.58 Chain B: N.255, H.257, G.287, I.289 Ligands: AZA.5 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.58, B:N.255, B:G.287 OXY.9: 6 residues within 4Å: Chain C: N.255, H.257, G.287, I.289 Chain D: T.58 Ligands: AZA.8 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.255, C:G.287 OXY.12: 6 residues within 4Å: Chain C: T.58 Chain D: N.255, H.257, G.287, I.289 Ligands: AZA.11 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:N.255, D:G.287

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Colloc'h, N. et al., Oxygen pressurized X-ray crystallography: probing the dioxygen binding site in cofactorless urate oxidase and implications for its catalytic mechanism. Biophys.J. (2008)

Release Date

2008-10-07

Peptides

Uricase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Uricase

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