SMTL ID : 5lpt.1

tRNA guanine Transglycosylase (TGT) in co-crystallized complex (space group P21) with 6-amino-2-(methylamino)-4-(2-((2R,3R,4S,5R,6S)-3,4,5,6-tetramethoxytetrahydro-2H-pyran-2-yl)ethyl)-1H-imidazo[4,5-g]quinazolin-8(7H)-one

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.36 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.4: 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 726: 6-azanyl-2-(methylamino)-4-[2-[(2~{R},3~{R},4~{S},5~{R},6~{S})-3,4,5,6-tetramethoxyoxan-2-yl]ethyl]-1,7-dihydroimidazo[4,5-g]quinazolin-8-one(Non-covalent)

726.2: 22 residues within 4Å: Chain A: L.68, G.69, N.70, D.102, S.103, G.105, Y.106, Q.107, D.156, C.158, I.201, Q.203, G.229, G.230, L.231, A.232, Y.258, M.260, G.261, D.280, V.282 Chain B: E.339 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:Y.106, A:M.260 Hydrogen bonds: A:S.103, A:G.105, A:Y.106, A:Q.107, A:Q.203, A:G.230, A:L.231, A:A.232 Water bridges: A:N.70, A:N.70, A:G.104, A:Q.107, A:L.231 Salt bridges: A:D.102, A:D.156 pi-Stacking: A:Y.106 726.5: 22 residues within 4Å: Chain A: E.339 Chain B: L.68, G.69, N.70, D.102, S.103, G.105, Y.106, Q.107, D.156, C.158, I.201, Q.203, G.229, G.230, L.231, A.232, Y.258, M.260, G.261, D.280, V.282 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:Y.106, B:Y.106, B:M.260 Hydrogen bonds: B:D.102, B:S.103, B:G.105, B:Y.106, B:Q.107, B:Q.203, B:G.230, B:L.231, B:A.232 Water bridges: B:N.70, B:N.70, B:M.260 Salt bridges: B:D.102, B:D.156 pi-Stacking: B:Y.106

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: V.45, G.46, G.69, N.70, L.74, M.93 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.68, A:N.70 GOL.6: 5 residues within 4Å: Chain B: W.296, K.360, F.373, F.377, R.380 3 PLIP interactions: 3 interactions with chain B Water bridges: B:W.296, B:K.360, B:F.377 GOL.7: 6 residues within 4Å: Chain B: A.20, R.21, E.22, I.365, S.366, G.368 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.21, B:E.22, B:I.365, B:G.368

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ehrmann, F.R. et al., Carbohydrate-based Inhibitors targeting the Ribose-34 pocket of Z.mobilis TGT and changing the oligomeric state of the homodimer. To be published

Release Date

2017-08-30

Peptides

Queuine tRNA-ribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Queuine tRNA-ribosyltransferase

Related Entries With Identical Sequence