SMTL ID : 6ia9.1

urate oxidase under 2000 bar (220 MPa) of argon

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

4 x ACE: ACETYL GROUP(Non-functional Binders)

ACE.1: 4 residues within 4Å: Chain A: S.1 Chain C: G.293, R.294, S.295 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.295 ACE.7: 3 residues within 4Å: Chain B: S.1 Chain D: R.294, S.295 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:S.295 ACE.13: 4 residues within 4Å: Chain A: G.293, R.294, S.295 Chain C: S.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.295 ACE.19: 3 residues within 4Å: Chain B: R.294, S.295 Chain D: S.1 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.295

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

NA.2: 5 residues within 4Å: Chain A: I.88, Y.91, N.92, I.94, E.136 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.136 NA.8: 5 residues within 4Å: Chain B: I.88, Y.91, N.92, I.94, E.136 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:I.94, B:H.95 NA.14: 5 residues within 4Å: Chain C: I.88, Y.91, N.92, I.94, E.136 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.92 NA.20: 5 residues within 4Å: Chain D: I.88, Y.91, N.92, I.94, E.136 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:I.94, D:E.136

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

AZA.3: 12 residues within 4Å: Chain A: F.159, L.170, R.176, S.226, V.227, Q.228, N.254 Chain C: Y.8, I.54, A.56, T.57, D.58 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:R.176, A:R.176, A:V.227, A:Q.228, A:Q.228, A:N.254, C:T.57, C:D.58 pi-Stacking: A:F.159, A:F.159 AZA.4: 6 residues within 4Å: Chain A: L.170, K.171, F.258, E.259 Chain C: D.58, K.61 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:K.171, A:E.259, C:K.61 Water bridges: A:T.169, A:T.169, A:K.171 pi-Stacking: A:F.258 AZA.11: 12 residues within 4Å: Chain B: F.159, L.170, R.176, S.226, V.227, Q.228, N.254 Chain D: Y.8, I.54, A.56, T.57, D.58 12 PLIP interactions: 4 interactions with chain D, 8 interactions with chain B Hydrogen bonds: D:T.57, D:D.58, B:R.176, B:R.176, B:V.227, B:Q.228, B:Q.228, B:N.254 Water bridges: D:T.57, D:T.57 pi-Stacking: B:F.159, B:F.159 AZA.12: 5 residues within 4Å: Chain B: L.170, F.258, E.259 Chain D: D.58, K.61 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:E.259, D:K.61 Water bridges: B:K.171 pi-Stacking: B:F.258 AZA.15: 12 residues within 4Å: Chain A: Y.8, I.54, A.56, T.57, D.58 Chain C: F.159, L.170, R.176, S.226, V.227, Q.228, N.254 10 PLIP interactions: 2 interactions with chain A, 8 interactions with chain C Hydrogen bonds: A:T.57, A:D.58, C:R.176, C:R.176, C:V.227, C:Q.228, C:Q.228, C:N.254 pi-Stacking: C:F.159, C:F.159 AZA.16: 6 residues within 4Å: Chain A: D.58, K.61 Chain C: L.170, K.171, F.258, E.259 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:K.171, C:E.259, A:K.61 Water bridges: C:T.169, C:T.169, C:K.171 pi-Stacking: C:F.258 AZA.23: 12 residues within 4Å: Chain B: Y.8, I.54, A.56, T.57, D.58 Chain D: F.159, L.170, R.176, S.226, V.227, Q.228, N.254 12 PLIP interactions: 8 interactions with chain D, 4 interactions with chain B Hydrogen bonds: D:R.176, D:R.176, D:V.227, D:Q.228, D:Q.228, D:N.254, B:T.57, B:D.58 pi-Stacking: D:F.159, D:F.159 Water bridges: B:T.57, B:T.57 AZA.24: 5 residues within 4Å: Chain B: D.58, K.61 Chain D: L.170, F.258, E.259 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain B Hydrogen bonds: D:E.259, B:K.61 Water bridges: D:K.171 pi-Stacking: D:F.258

8 x AR: ARGON(Non-covalent)

AR.5: 3 residues within 4Å: Chain A: V.227, T.230, L.252 No protein-ligand interaction detected (PLIP) AR.6: 6 residues within 4Å: Chain A: V.15, Y.16, K.17, Y.30, M.32, V.73 No protein-ligand interaction detected (PLIP) AR.9: 3 residues within 4Å: Chain B: L.178, T.230, L.252 No protein-ligand interaction detected (PLIP) AR.10: 7 residues within 4Å: Chain B: V.15, Y.16, K.17, Y.30, E.31, M.32, V.73 No protein-ligand interaction detected (PLIP) AR.17: 3 residues within 4Å: Chain C: V.227, T.230, L.252 No protein-ligand interaction detected (PLIP) AR.18: 6 residues within 4Å: Chain C: V.15, Y.16, K.17, Y.30, M.32, V.73 No protein-ligand interaction detected (PLIP) AR.21: 3 residues within 4Å: Chain D: L.178, T.230, L.252 No protein-ligand interaction detected (PLIP) AR.22: 7 residues within 4Å: Chain D: V.15, Y.16, K.17, Y.30, E.31, M.32, V.73 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Prange, T. et al., Comparative study of the effects of high hydrostatic pressure per se and high argon pressure on urate oxidase ligand stabilization. Acta Cryst. D (2022)

Release Date

2019-12-18

Peptides

Uricase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
aaa

B
aba

C
aaa

D
aba

Uricase

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