SMTL ID : 3bld.1

tRNA guanine transglycosylase V233G mutant preQ1 complex structure

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.19 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 PRF: 7-DEAZA-7-AMINOMETHYL-GUANINE(Non-covalent)

PRF.2: 10 residues within 4Å: Chain A: S.103, F.106, D.156, I.201, Q.203, G.229, G.230, L.231, M.260, G.261 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:M.260 Hydrogen bonds: A:S.103, A:Q.203, A:G.230, A:L.231 Water bridges: A:F.106, A:F.106, A:Q.107, A:M.260 Salt bridges: A:D.156 pi-Stacking: A:F.106 PRF.6: 10 residues within 4Å: Chain B: S.103, F.106, D.156, I.201, Q.203, G.229, G.230, L.231, M.260, G.261 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:M.260 Hydrogen bonds: B:S.103, B:Q.203, B:G.230, B:L.231 Water bridges: B:F.106, B:F.106, B:Q.107, B:M.260 Salt bridges: B:D.156 pi-Stacking: B:F.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 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:P.56, A:D.96, A:D.96, A:R.97 Water bridges: A:E.57 GOL.4: 6 residues within 4Å: Chain A: R.11, M.32, K.33, R.34, G.35, V.36 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.34, A:G.35 GOL.7: 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:D.96, B:D.96, B:R.97 Water bridges: B:E.57 GOL.8: 6 residues within 4Å: Chain B: R.11, M.32, K.33, R.34, G.35, V.36 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.34, B:G.35

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

2008-12-16

Peptides

Queuine tRNA-ribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Queuine tRNA-ribosyltransferase

Related Entries With Identical Sequence