SMTL ID : 4gd0.1

tRNA-guanine transglycosylase Y106F, C158V mutant

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.29 Å

Oligo State

homo-dimer

Ligands

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: P.56, E.57, G.94, W.95, D.96, R.97 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:P.56, A:D.96, A:D.96, A:R.97 Water bridges: A:E.57, A:E.57, A:R.97 GOL.2: 3 residues within 4Å: Chain A: P.252, D.254, K.255 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.255, A:K.255 GOL.3: 5 residues within 4Å: Chain A: G.229, G.230, L.231, V.233, M.260 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.230 Water bridges: A:Q.203, A:Q.203, A:L.231, A:M.260 GOL.4: 7 residues within 4Å: Chain A: W.296, E.317, K.360, F.373, D.376, F.377, R.380 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.317, A:K.360, A:D.376, A:R.380 Water bridges: A:E.317 GOL.6: 9 residues within 4Å: Chain A: G.105, M.109, Q.117, V.122, F.155, D.156, E.157, V.158, W.178 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.117, A:V.158 Water bridges: A:S.103, A:G.105, A:V.158 GOL.7: 6 residues within 4Å: Chain B: P.56, E.57, G.94, W.95, D.96, R.97 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:P.56, B:D.96, B:D.96, B:R.97 Water bridges: B:E.57, B:R.97 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:K.255, B:K.255 GOL.9: 5 residues within 4Å: Chain B: G.229, G.230, L.231, V.233, M.260 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.230 Water bridges: B:Q.203, B:Q.203, B:L.231, B:M.260 GOL.10: 7 residues within 4Å: Chain B: W.296, E.317, K.360, F.373, D.376, F.377, R.380 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:E.317, B:K.360, B:D.376, B:R.380 Water bridges: B:K.360 GOL.12: 9 residues within 4Å: Chain B: G.105, M.109, Q.117, V.122, F.155, D.156, E.157, V.158, W.178 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.117, B:V.158 Water bridges: B:S.103, B:G.105, B:V.158

2 x ZN: ZINC ION(Non-covalent)

ZN.5: 2 residues within 4Å: Chain A: S.316, E.317 No protein-ligand interaction detected (PLIP) ZN.11: 2 residues within 4Å: Chain B: S.316, E.317 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Biela, I. et al., Investigation of Specificity Determinants in Bacterial tRNA-Guanine Transglycosylase Reveals Queuine, the Substrate of Its Eucaryotic Counterpart, as Inhibitor. Plos One (2013)

Release Date

2012-08-29

Peptides

Queuine tRNA-ribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Queuine tRNA-ribosyltransferase

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