SMTL ID : 4kwo.1

tRNA guanine transglycosylase (TGT) in complex with Furanoside-Based lin-Benzoguanine 3

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.32 Å

Oligo State

homo-dimer

Ligands

2 x 1UD: methyl 6-[6-amino-2-(methylamino)-8-oxo-7,8-dihydro-1H-imidazo[4,5-g]quinazolin-4-yl]-5,6-dideoxy-3-O-methyl-beta-D-ribo-hexofuranoside(Non-covalent)

1UD.1: 19 residues within 4Å: Chain A: L.70, L.102, D.104, S.105, Y.108, Q.109, D.158, C.160, I.203, Q.205, G.231, G.232, L.233, A.234, V.235, Y.260, M.262, G.263, D.282 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:Y.108 Hydrogen bonds: A:D.104, A:S.105, A:Q.109, A:Q.205, A:G.232, A:L.233, A:A.234 Water bridges: A:D.158, A:C.160 Salt bridges: A:D.104, A:D.158 pi-Stacking: A:Y.108, A:Y.108 1UD.4: 19 residues within 4Å: Chain B: L.70, L.102, D.104, S.105, Y.108, Q.109, D.158, C.160, I.203, Q.205, G.231, G.232, L.233, A.234, V.235, Y.260, M.262, G.263, D.282 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:Y.108 Hydrogen bonds: B:D.104, B:D.104, B:S.105, B:Y.108, B:Q.109, B:Q.205, B:G.232, B:L.233, B:A.234 Water bridges: B:D.158, B:C.160, B:D.282 Salt bridges: B:D.104, B:D.158 pi-Stacking: B:Y.108, B:Y.108

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.320, C.322, C.325, H.351 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.320, A:C.322, A:C.325, A:H.351 ZN.5: 4 residues within 4Å: Chain B: C.320, C.322, C.325, H.351 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.320, B:C.322, B:C.325, B:H.351

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 8 residues within 4Å: Chain A: R.36, H.147, G.150, S.151, E.193, Q.194, N.197, A.198 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.36, A:H.147, A:E.193, A:Q.194 GOL.6: 8 residues within 4Å: Chain B: R.36, H.147, G.150, S.151, E.193, Q.194, N.197, A.198 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.36, B:H.147, B:H.147, B:E.193, B:Q.194

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Barandun, L.J. et al., Replacement of Water Molecules in a Phosphate Binding Site by Furanoside-Appended lin-Benzoguanine Ligands of tRNA-Guanine Transglycosylase (TGT). Chemistry (2015)

Release Date

2014-12-24

Peptides

Queuine tRNA-ribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Queuine tRNA-ribosyltransferase

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