SMTL ID : 7q09.1

URATE OXIDASE AZA-XANTHINE COMPLEX UNDER 1500 BAR OF ARGON

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.19 Å

Oligo State

homo-tetramer

Ligands

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

NA.1: 5 residues within 4Å: Chain A: I.88, Y.91, N.92, I.94, E.136 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.94, A:H.95 NA.7: 6 residues within 4Å: Chain B: I.88, Y.91, N.92, I.94, H.95, E.136 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.91, B:I.94, B:H.95 NA.13: 5 residues within 4Å: Chain C: I.88, Y.91, N.92, I.94, E.136 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.92, C:I.94 NA.19: 6 residues within 4Å: Chain D: I.88, Y.91, N.92, I.94, H.95, E.136 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:N.92, D:I.94, D:H.95

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

ACE.2: 3 residues within 4Å: Chain A: S.1 Chain C: R.294, S.295 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.295 ACE.8: 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.14: 3 residues within 4Å: Chain A: R.294, S.295 Chain C: S.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.295 ACE.20: 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

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 11 PLIP interactions: 9 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 Water bridges: A:H.256 pi-Stacking: A:F.159, A:F.159 AZA.4: 4 residues within 4Å: Chain A: L.170, F.258 Chain C: D.58, K.61 7 PLIP interactions: 1 interactions with chain C, 6 interactions with chain A Hydrogen bonds: C:K.61 Water bridges: A:T.169, A:T.169, A:K.171, A:K.171 pi-Stacking: A:F.258, A:F.258 AZA.9: 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: 8 interactions with chain B, 4 interactions with chain D Hydrogen bonds: B:R.176, B:R.176, B:V.227, B:Q.228, B:Q.228, B:N.254, D:T.57, D:D.58 pi-Stacking: B:F.159, B:F.159 Water bridges: D:T.57, D:T.57 AZA.10: 4 residues within 4Å: Chain B: L.170, F.258, E.259 Chain D: D.58 7 PLIP interactions: 3 interactions with chain D, 4 interactions with chain B Water bridges: D:D.58, D:K.61, D:K.61, B:T.169, B:Y.257 Hydrogen bonds: B:E.259 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 11 PLIP interactions: 9 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:R.176, C:R.176, C:V.227, C:Q.228, C:Q.228, C:N.254, A:T.57, A:D.58 Water bridges: C:H.256 pi-Stacking: C:F.159, C:F.159 AZA.16: 4 residues within 4Å: Chain A: D.58, K.61 Chain C: L.170, F.258 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain A Water bridges: C:T.169, C:T.169, C:K.171, C:K.171 pi-Stacking: C:F.258, C:F.258 Hydrogen bonds: A:K.61 AZA.21: 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.22: 4 residues within 4Å: Chain B: D.58 Chain D: L.170, F.258, E.259 7 PLIP interactions: 3 interactions with chain D, 4 interactions with chain B Hydrogen bonds: D:E.259 Water bridges: D:Y.257, B:D.58, B:D.58, B:K.61, B:K.61 pi-Stacking: D:F.258

8 x AR: ARGON(Non-covalent)

AR.5: 2 residues within 4Å: Chain A: 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.11: 3 residues within 4Å: Chain B: L.178, T.230, L.252 No protein-ligand interaction detected (PLIP) AR.12: 5 residues within 4Å: Chain B: V.15, K.17, Y.30, M.32, V.73 No protein-ligand interaction detected (PLIP) AR.17: 2 residues within 4Å: Chain C: 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.23: 3 residues within 4Å: Chain D: L.178, T.230, L.252 No protein-ligand interaction detected (PLIP) AR.24: 5 residues within 4Å: Chain D: V.15, K.17, Y.30, 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

2022-02-09

Peptides

Uricase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Uricase

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