SMTL ID : 5jsq.1

Trypanosome brucei Hypoxanthine-guanine phosphoribosyltranferase in complex with a 9-[7-(phosphonoheptyl]guanine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

2 x 6MS: [6-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)hexyl]phosphonic acid(Non-covalent)

6MS.1: 16 residues within 4Å: Chain A: L.59, E.119, I.121, L.122, D.123, T.124, A.125, L.126, T.127, L.128, K.151, V.171, F.172, V.173, L.178, D.179 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:L.59, A:I.121 Hydrogen bonds: A:D.123, A:T.124, A:T.124, A:A.125, A:L.126, A:T.127, A:T.127, A:L.128, A:K.151, A:V.173, A:V.173, A:V.173 Water bridges: A:T.124, A:D.179 pi-Stacking: A:F.172 6MS.7: 14 residues within 4Å: Chain B: L.59, I.121, L.122, D.123, T.124, A.125, L.126, T.127, K.151, V.171, F.172, V.173, L.178, D.179 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:L.59 Hydrogen bonds: B:D.123, B:D.123, B:T.124, B:A.125, B:L.126, B:T.127, B:T.127, B:K.151, B:V.173, B:V.173, B:V.173, B:D.179 Water bridges: B:E.119, B:T.124, B:T.124, B:L.128, B:D.179 pi-Stacking: B:F.172

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 9 residues within 4Å: Chain A: E.23, H.27, R.188 Chain B: H.27, R.31, D.68, R.71, I.72 Ligands: PEG.8 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:H.27, A:R.188, B:R.31 Water bridges: A:R.188 PEG.8: 9 residues within 4Å: Chain A: H.27, R.31, D.68, R.71, I.72 Chain B: E.23, H.27, R.188 Ligands: PEG.2 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:H.27, B:R.188, B:R.188, A:R.31

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: R.129, V.132, F.159, T.160 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.129, A:R.129, A:K.136, A:K.136, A:T.160, A:T.160 Water bridges: A:P.158, A:T.160 GOL.4: 7 residues within 4Å: Chain A: F.15, Y.184, E.186, V.187 Chain B: P.48, G.74, P.79 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Water bridges: B:G.74, B:G.77, B:T.80, A:E.186 Hydrogen bonds: A:E.186 GOL.9: 8 residues within 4Å: Chain A: P.48, G.74, P.79 Chain B: Y.13, F.15, Y.184, E.186, V.187 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.186 Water bridges: B:Y.13, B:R.188, A:G.74

2 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 4 residues within 4Å: Chain A: K.60, Q.182, R.185 Ligands: SO4.6 No protein-ligand interaction detected (PLIP) MG.10: 4 residues within 4Å: Chain B: K.60, Q.182, R.185 Ligands: SO4.11 No protein-ligand interaction detected (PLIP)

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.6: 5 residues within 4Å: Chain A: L.59, K.60, G.61, R.185 Ligands: MG.5 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.60, A:G.61 Water bridges: A:R.185, A:R.185, A:R.185 Salt bridges: A:R.185 SO4.11: 5 residues within 4Å: Chain B: L.59, K.60, G.61, R.185 Ligands: MG.10 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:K.60, B:G.61 Water bridges: B:D.179, B:R.185, B:R.185 Salt bridges: B:R.185

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Teran, D. et al., Crystal structures and inhibition of Trypanosoma brucei hypoxanthine-guanine phosphoribosyltransferase. Sci Rep (2016)

Release Date

2016-11-09

Peptides

hypoxanthine-guanine phosphoribosyltranferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

hypoxanthine-guanine phosphoribosyltranferase

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