SMTL ID : 3sm0.1

tRNA-Guanine Transglycosylase in complex with lin-Benzohypoxanthine Inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.57 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.318, C.320, C.323, H.349 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.318, A:C.320, A:C.323, A:H.349 ZN.5: 4 residues within 4Å: Chain B: C.318, C.320, C.323, H.349 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.318, B:C.320, B:C.323, B:H.349

2 x AEK: 4-{2-[(cyclopentylmethyl)amino]ethyl}-2-(methylamino)-3,7-dihydro-8H-imidazo[4,5-g]quinazolin-8-one(Non-covalent)

AEK.2: 17 residues within 4Å: Chain A: V.45, L.68, N.70, D.102, Y.106, Q.107, D.156, C.158, Q.203, G.229, G.230, L.231, A.232, V.233, M.260, G.261, D.280 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:V.45, A:L.68, A:N.70, A:D.102, A:Y.106, A:Y.106 Hydrogen bonds: A:D.156, A:Q.203, A:G.230, A:A.232, A:D.280 Water bridges: A:C.158 pi-Stacking: A:Y.106, A:Y.106 AEK.6: 17 residues within 4Å: Chain B: V.45, L.68, N.70, D.102, Y.106, Q.107, D.156, C.158, Q.203, G.229, G.230, L.231, A.232, V.233, M.260, G.261, D.280 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:V.45, B:L.68, B:N.70, B:D.102, B:Y.106, B:Y.106 Hydrogen bonds: B:D.156, B:Q.203, B:G.230, B:A.232, B:D.280 Water bridges: B:C.158 pi-Stacking: B:Y.106, B:Y.106

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: P.56, E.57, R.60, G.94, W.95, D.96, R.97 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.56, A:G.94, A:D.96 GOL.4: 6 residues within 4Å: Chain A: W.296, E.317, K.360, F.373, F.377, R.380 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.317, A:R.380 Water bridges: A:F.377 GOL.7: 7 residues within 4Å: Chain B: P.56, E.57, R.60, G.94, W.95, D.96, R.97 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:P.56, B:G.94, B:D.96 GOL.8: 6 residues within 4Å: Chain B: W.296, E.317, K.360, F.373, F.377, R.380 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.317, B:R.380 Water bridges: B:F.377

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Barandun, L.J. et al., From lin-Benzoguanines to lin-Benzohypoxanthines as Ligands for Zymomonas mobilis tRNA-Guanine Transglycosylase: Replacement of Protein-Ligand Hydrogen Bonding by Importing Water Clusters. Chemistry (2012)

Release Date

2012-06-27

Peptides

Queuine tRNA-ribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Queuine tRNA-ribosyltransferase

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