SMTL ID : 1qk5.1

TOXOPLASMA GONDII HYPOXANTHINE-GUANINE PHOSPHORIBOSYLTRANSFERASE WITH XMP, PYROPHOSPHATE AND TWO MG2+ IONS

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-tetramer

Ligands

4 x XMP: XANTHOSINE-5'-MONOPHOSPHATE(Non-covalent)

XMP.1: 16 residues within 4Å: Chain A: D.150, I.151, V.152, A.153, T.154, G.155, F.156, T.157, K.181, V.201, W.202, I.203, Y.208, D.209 Ligands: POP.2, MG.3 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:D.150, A:A.153, A:T.154, A:G.155, A:F.156, A:T.157, A:T.157, A:T.157, A:K.181, A:I.203, A:I.203, A:D.209 Water bridges: A:D.150, A:L.158, A:D.209, A:D.209 pi-Stacking: A:W.202 XMP.5: 16 residues within 4Å: Chain B: D.150, I.151, V.152, A.153, T.154, G.155, F.156, T.157, K.181, V.201, W.202, I.203, Y.208, D.209 Ligands: POP.6, MG.7 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:D.150, B:A.153, B:T.154, B:G.155, B:F.156, B:T.157, B:T.157, B:K.181, B:I.203, B:I.203, B:D.209 Water bridges: B:E.149, B:D.150, B:L.158, B:D.209 pi-Stacking: B:W.202 XMP.9: 16 residues within 4Å: Chain C: D.150, I.151, V.152, A.153, T.154, G.155, F.156, T.157, K.181, V.201, W.202, I.203, Y.208, D.209 Ligands: POP.10, MG.11 19 PLIP interactions: 19 interactions with chain C Hydrogen bonds: C:D.150, C:A.153, C:T.154, C:G.155, C:F.156, C:T.157, C:T.157, C:T.157, C:K.181, C:I.203, C:I.203, C:D.209, C:D.209 Water bridges: C:D.150, C:D.150, C:L.158, C:D.209, C:D.209 pi-Stacking: C:W.202 XMP.13: 16 residues within 4Å: Chain D: D.150, I.151, V.152, A.153, T.154, G.155, F.156, T.157, K.181, V.201, W.202, I.203, Y.208, D.209 Ligands: POP.14, MG.15 18 PLIP interactions: 18 interactions with chain D Hydrogen bonds: D:D.150, D:A.153, D:T.154, D:G.155, D:F.156, D:T.157, D:T.157, D:K.181, D:I.203, D:I.203, D:D.209, D:D.209 Water bridges: D:D.150, D:L.158, D:D.209, D:D.209, D:D.209 pi-Stacking: D:W.202

4 x POP: PYROPHOSPHATE 2-(Non-covalent)

POP.2: 11 residues within 4Å: Chain A: L.81, K.82, G.83, R.117, L.118, K.119, D.209, R.215 Ligands: XMP.1, MG.3, MG.4 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:L.81, A:K.82, A:G.83 Water bridges: A:S.84, A:R.117, A:R.117, A:K.119, A:D.209, A:R.215 Salt bridges: A:R.117, A:K.119, A:R.215 POP.6: 10 residues within 4Å: Chain B: L.81, K.82, G.83, R.117, K.119, D.209, R.215 Ligands: XMP.5, MG.7, MG.8 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:K.82, B:G.83 Water bridges: B:S.84, B:R.117, B:K.119, B:D.209, B:R.215, B:R.215 Salt bridges: B:R.117, B:K.119, B:K.119, B:R.215 POP.10: 11 residues within 4Å: Chain C: L.81, K.82, G.83, R.117, L.118, K.119, D.209, R.215 Ligands: XMP.9, MG.11, MG.12 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:L.81, C:K.82, C:G.83 Water bridges: C:S.84, C:R.117, C:R.117, C:K.119, C:D.209, C:R.215 Salt bridges: C:R.117, C:K.119, C:R.215 POP.14: 10 residues within 4Å: Chain D: L.81, K.82, G.83, R.117, K.119, D.209, R.215 Ligands: XMP.13, MG.15, MG.16 15 PLIP interactions: 15 interactions with chain D Hydrogen bonds: D:K.82, D:G.83 Water bridges: D:S.84, D:R.117, D:K.119, D:D.150, D:D.209, D:D.209, D:D.209, D:R.215, D:R.215 Salt bridges: D:R.117, D:K.119, D:K.119, D:R.215

8 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.3: 3 residues within 4Å: Chain A: D.150 Ligands: XMP.1, POP.2 No protein-ligand interaction detected (PLIP) MG.4: 3 residues within 4Å: Chain A: D.209, R.215 Ligands: POP.2 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.209, H2O.4, H2O.4, H2O.4 MG.7: 2 residues within 4Å: Ligands: XMP.5, POP.6 No protein-ligand interaction detected (PLIP) MG.8: 2 residues within 4Å: Chain B: D.209 Ligands: POP.6 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.209, H2O.7, H2O.7, H2O.7 MG.11: 3 residues within 4Å: Chain C: D.150 Ligands: XMP.9, POP.10 No protein-ligand interaction detected (PLIP) MG.12: 3 residues within 4Å: Chain C: D.209, R.215 Ligands: POP.10 4 PLIP interactions: 1 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:D.209, H2O.11, H2O.11, H2O.11 MG.15: 2 residues within 4Å: Ligands: XMP.13, POP.14 No protein-ligand interaction detected (PLIP) MG.16: 2 residues within 4Å: Chain D: D.209 Ligands: POP.14 4 PLIP interactions: 1 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:D.209, H2O.14, H2O.14, H2O.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Heroux, A. et al., Crystal Structure of Toxoplasma Gondii Hypoxanthine-Guanine Phosphoribosyltransferase with Xmp, Pyrophosphate and Two Mg2+ Ions Bound: Insights Into the Catalytic Mechanism. Biochemistry (1999)

Release Date

1999-10-17

Peptides

HYPOXANTHINE-GUANINE PHOSPHORIBOSYLTRANSFERASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

HYPOXANTHINE-GUANINE PHOSPHORIBOSYLTRANSFERASE