SMTL ID : 4ipp.1

tRNA-guanine-transglycosylase (TGT) mutant V262D APO-Structure

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.33 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.7: 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

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 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:G.94, A:D.96, A:R.97 Water bridges: A:E.57 GOL.3: 7 residues within 4Å: Chain A: W.296, E.317, K.360, F.373, D.376, 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.4: 6 residues within 4Å: Chain A: L.311, P.313, C.323, Q.324, W.326, S.327 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:C.323 GOL.5: 3 residues within 4Å: Chain A: Q.117, S.118, R.174 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.119, A:R.174, A:R.174 GOL.6: 7 residues within 4Å: Chain A: Y.106, G.229, G.230, L.231, V.233, M.260, G.261 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.230, A:L.231 Water bridges: A:Q.203, A:L.231, A:A.232, A:D.262 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:P.56, B:G.94, B:D.96, B:R.97 Water bridges: B:E.57 GOL.9: 7 residues within 4Å: Chain B: W.296, E.317, K.360, F.373, D.376, 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 GOL.10: 6 residues within 4Å: Chain B: L.311, P.313, C.323, Q.324, W.326, S.327 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:C.323 GOL.11: 3 residues within 4Å: Chain B: Q.117, S.118, R.174 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.119, B:R.174, B:R.174 GOL.12: 7 residues within 4Å: Chain B: Y.106, G.229, G.230, L.231, V.233, M.260, G.261 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.230, B:L.231 Water bridges: B:Q.203, B:L.231, B:A.232, B:D.262

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Neeb, M. et al., Investigating the advantage of ligands with residual mobility in binding mutated TGT. To be Published

Release Date

2014-01-15

Peptides

Queuine tRNA-ribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Queuine tRNA-ribosyltransferase