SMTL ID : 3ge7.1

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

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 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 AFQ: 6-amino-4-{2-[(cyclopentylmethyl)amino]ethyl}-2-(methylamino)-1,7-dihydro-8H-imidazo[4,5-g]quinazolin-8-one(Non-covalent)

AFQ.2: 18 residues within 4Å: Chain A: V.45, L.68, N.70, D.102, S.103, Y.106, Q.107, D.156, C.158, I.201, Q.203, G.229, G.230, L.231, A.232, M.260, G.261, D.280 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:V.45, A:L.68, A:N.70, A:Y.106, A:M.260 Hydrogen bonds: A:S.103, A:Q.203, A:G.230, A:L.231, A:A.232, A:D.280 Water bridges: A:L.231 Salt bridges: A:D.102, A:D.156 pi-Stacking: A:Y.106, A:Y.106 AFQ.6: 18 residues within 4Å: Chain B: V.45, L.68, N.70, D.102, S.103, Y.106, Q.107, D.156, C.158, I.201, Q.203, G.229, G.230, L.231, A.232, M.260, G.261, D.280 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:V.45, B:L.68, B:N.70, B:Y.106, B:M.260 Hydrogen bonds: B:S.103, B:Y.106, B:Q.203, B:G.230, B:L.231, B:A.232, B:D.280 Water bridges: B:L.231 Salt bridges: B:D.102, B:D.156 pi-Stacking: B:Y.106, B:Y.106

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: P.56, E.57, G.94, W.95, D.96, R.97 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.94, A:D.96, A:R.97 Water bridges: A:E.57 GOL.4: 4 residues within 4Å: Chain A: D.187, S.188, R.189, K.190 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.188 Water bridges: A:K.190 GOL.7: 6 residues within 4Å: Chain B: P.56, E.57, G.94, W.95, D.96, R.97 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.94, B:D.96, B:R.97 Water bridges: B:E.57 GOL.8: 4 residues within 4Å: Chain B: D.187, S.188, R.189, K.190 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.188 Water bridges: B:K.190

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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