SMTL ID : 3l8w.1

Urate oxidase from aspergillus flavus complexed with xanthin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.00 Å

Oligo State

homo-tetramer

Ligands

4 x XAN: XANTHINE(Non-covalent)

XAN.1: 14 residues within 4Å: Chain A: F.160, L.171, R.177, S.227, V.228, Q.229, N.255, H.257, I.289 Chain B: Y.9, I.55, A.57, T.58, D.59 8 PLIP interactions: 6 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:T.58 XAN.4: 14 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, H.257, I.289 8 PLIP interactions: 6 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:T.58 XAN.7: 14 residues within 4Å: Chain C: F.160, L.171, R.177, S.227, V.228, Q.229, N.255, H.257, I.289 Chain D: Y.9, I.55, A.57, T.58, D.59 8 PLIP interactions: 6 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:T.58 XAN.10: 14 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, H.257, I.289 8 PLIP interactions: 6 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:T.58

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

NA.2: 6 residues within 4Å: Chain A: I.89, Y.92, N.93, I.95, H.96, E.137 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.95, A:H.96, A:E.137 NA.5: 6 residues within 4Å: Chain B: I.89, Y.92, N.93, I.95, H.96, E.137 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:I.95, B:H.96, B:E.137 NA.8: 6 residues within 4Å: Chain C: I.89, Y.92, N.93, I.95, H.96, E.137 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:Y.92, C:I.95, C:H.96 NA.11: 6 residues within 4Å: Chain D: I.89, Y.92, N.93, I.95, H.96, E.137 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:N.93, D:I.95, D:H.96

4 x 4PO: alpha-(4-pyridyl-1-oxide)-N-tert-butylnitrone(Non-covalent)

4PO.3: 9 residues within 4Å: Chain A: N.13, R.15, E.32, T.34, H.105, R.123 Chain B: D.284 Chain D: K.256, S.283 6 PLIP interactions: 1 interactions with chain D, 5 interactions with chain A Water bridges: D:K.256 Hydrophobic interactions: A:N.13, A:R.15 Hydrogen bonds: A:T.34, A:R.123, A:R.123 4PO.6: 9 residues within 4Å: Chain A: D.284 Chain B: N.13, R.15, E.32, T.34, H.105, R.123 Chain C: K.256, S.283 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:N.13, B:R.15 Hydrogen bonds: B:T.34, B:R.123, B:R.123 Water bridges: C:K.256 4PO.9: 9 residues within 4Å: Chain B: K.256, S.283 Chain C: N.13, R.15, E.32, T.34, H.105, R.123 Chain D: D.284 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:N.13, C:R.15 Hydrogen bonds: C:T.34, C:R.123, C:R.123 Water bridges: B:K.256 4PO.12: 9 residues within 4Å: Chain A: K.256, S.283 Chain C: D.284 Chain D: N.13, R.15, E.32, T.34, H.105, R.123 6 PLIP interactions: 1 interactions with chain A, 5 interactions with chain D Water bridges: A:K.256 Hydrophobic interactions: D:N.13, D:R.15 Hydrogen bonds: D:T.34, D:R.123, D:R.123

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gabison, L. et al., Near-atomic resolution structures of urate oxidase complexed with its substrate and analogues: the protonation state of the ligand. Acta Crystallogr.,Sect.D (2010)

Release Date

2010-06-02

Peptides

Uricase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Uricase

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