SMTL ID : 2qii.1

Crystal Structure Of tRNA-Guanine Transglycosylase (TGT) From Zymomonas mobilis Complexed With Archaeosine Precursor, Preq0

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 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 PQ0: 2-AMINO-4-OXO-4,7-DIHYDRO-3H-PYRROLO[2,3-D]PYRIMIDINE-5-CARBONITRILE(Non-covalent)

PQ0.2: 14 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 Ligands: GOL.4 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:D.102, A:S.103, A:Q.203, A:G.230, A:A.232 Water bridges: A:G.104, A:L.231 Salt bridges: A:D.102, A:D.156 pi-Stacking: A:Y.106 PQ0.7: 14 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 Ligands: GOL.9 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:D.102, B:S.103, B:Q.203, B:G.230, B:A.232 Water bridges: B:G.104, B:L.231 Salt bridges: B:D.102, B:D.156 pi-Stacking: B:Y.106

6 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 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.96, A:D.96, A:R.97 Water bridges: A:E.57, A:R.97 GOL.4: 7 residues within 4Å: Chain A: V.45, L.68, N.70, D.102, Q.107, D.280 Ligands: PQ0.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.70, A:N.70, A:Q.107, A:Y.258, A:D.280 GOL.5: 6 residues within 4Å: Chain A: W.296, E.317, K.360, F.373, F.377, R.380 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.317, A:D.376, A:R.380 Water bridges: A:E.317 GOL.8: 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:D.96, B:D.96, B:R.97 Water bridges: B:E.57, B:R.97 GOL.9: 7 residues within 4Å: Chain B: V.45, L.68, N.70, D.102, Q.107, D.280 Ligands: PQ0.7 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.70, B:N.70, B:D.102, B:Q.107, B:D.280 GOL.10: 6 residues within 4Å: Chain B: W.296, E.317, K.360, F.373, F.377, R.380 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.317, B:D.376, B:R.380 Water bridges: B:K.360

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tidten, N. et al., Glutamate versus glutamine exchange swaps substrate selectivity in tRNA-guanine transglycosylase: insight into the regulation of substrate selectivity by kinetic and crystallographic studies. J.Mol.Biol. (2007)

Release Date

2007-07-17

Peptides

Queuine tRNA-ribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Queuine tRNA-ribosyltransferase

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