SMTL ID : 3gc5.1

tRNA-guanine transglycosylase in complex with 6-amino-4-(2-aminoethyl)-2-(methylamino)-1,7-dihydro-8H-imidazo[4,5-g]quinazolin-8-one

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 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.6: 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 2MQ: 6-amino-4-(2-aminoethyl)-2-(methylamino)-1,7-dihydro-8H-imidazo[4,5-g]quinazolin-8-one(Non-covalent)

2MQ.2: 15 residues within 4Å: Chain A: D.102, S.103, Y.106, D.156, C.158, I.201, 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:Y.106, A:Y.106 Hydrogen bonds: A:S.103, A:Q.203, A:G.230, A:A.232, A:D.280 Water bridges: A:N.70, A:N.70, A:L.231 Salt bridges: A:D.102, A:D.156 pi-Stacking: A:Y.106, A:Y.106 2MQ.7: 15 residues within 4Å: Chain B: D.102, S.103, Y.106, D.156, C.158, I.201, Q.203, G.229, G.230, L.231, A.232, V.233, M.260, G.261, D.280 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:Y.106, B:Y.106 Hydrogen bonds: B:S.103, B:Q.203, B:G.230, B:A.232, B:D.280 Water bridges: B:N.70, B:N.70, B:Y.106, B:L.231, B:D.280 Salt bridges: B:D.102, B:D.156 pi-Stacking: B:Y.106, B:Y.106

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: P.252, D.254, K.255 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.254, A:K.255 GOL.4: 6 residues within 4Å: Chain A: P.56, E.57, G.94, W.95, D.96, R.97 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:P.56, A:G.94, A:D.96, A:R.97 Water bridges: A:E.57 GOL.5: 6 residues within 4Å: Chain A: W.296, E.317, K.360, F.373, D.376, F.377 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.317, A:D.376 GOL.8: 3 residues within 4Å: Chain B: P.252, D.254, K.255 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.254, B:K.255 GOL.9: 6 residues within 4Å: Chain B: P.56, E.57, G.94, W.95, D.96, R.97 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:P.56, B:G.94, B:D.96, B:R.97 Water bridges: B:E.57 GOL.10: 6 residues within 4Å: Chain B: W.296, E.317, K.360, F.373, D.376, F.377 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.317, B:D.376

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ritschel, T. et al., How to Replace the Residual Solvation Shell of Polar Active Site Residues to Achieve Nanomolar Inhibition of tRNA-Guanine Transglycosylase. Chemmedchem (2009)

Release Date

2009-12-15

Peptides

Queuine tRNA-ribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Queuine tRNA-ribosyltransferase

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