SMTL ID : 5i03.1

tRNA-guanine Transglycosylase (TGT) in co-crystallized complex with 6-Amino-4-[2-(4-methylphenyl)ethyl]-1,7-dihydro-8H-imidazo[4,5-g]quinazolin-8-one

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.73 Å

Oligo State

homo-dimer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 9 residues within 4Å: Chain A: G.46, A.49, T.50, V.51, M.93, W.95 Chain B: W.326, Y.330, L.341 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Y.330, A:G.46, A:V.51 Water bridges: B:W.326 GOL.2: 3 residues within 4Å: Chain A: P.252, D.254, K.255 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.255 GOL.6: 9 residues within 4Å: Chain A: W.326, Y.330, L.341 Chain B: G.46, A.49, T.50, V.51, M.93, W.95 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Water bridges: A:W.326 Hydrogen bonds: B:G.46, B:V.51 GOL.7: 3 residues within 4Å: Chain B: P.252, D.254, K.255 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.255

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 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.8: 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 EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 6 residues within 4Å: Chain A: H.145, G.148, S.149, E.191, Q.192, N.195 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.145 EDO.9: 6 residues within 4Å: Chain B: H.145, G.148, S.149, E.191, Q.192, N.195 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.145

2 x NEZ: 6-AMINO-4-[2-(4-METHYLPHENYL)ETHYL]-1,7-DIHYDRO-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-ONE(Non-covalent)

NEZ.5: 16 residues within 4Å: Chain A: L.68, D.102, S.103, Y.106, D.156, C.158, I.201, Q.203, G.229, G.230, L.231, A.232, M.260, G.261, D.280, V.282 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.68, A:D.102, A:Y.106, A:Y.106, A:M.260, A:V.282 Hydrogen bonds: A:S.103, A:Q.203, A:G.230, A:L.231 Salt bridges: A:D.102, A:D.156 pi-Stacking: A:Y.106, A:Y.106 NEZ.10: 16 residues within 4Å: Chain B: L.68, D.102, S.103, Y.106, D.156, C.158, I.201, Q.203, G.229, G.230, L.231, A.232, M.260, G.261, D.280, V.282 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:L.68, B:D.102, B:Y.106, B:Y.106, B:M.260, B:V.282 Hydrogen bonds: B:S.103, B:Q.203, B:G.230, B:L.231 Salt bridges: B:D.102, B:D.156 pi-Stacking: B:Y.106, B:Y.106

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ehrmann, F.R. et al., Co-crystallization, Isothermal titration calorimetry and nanoESI-MS reveal dimer disturbing inhibitors. To be Published

Release Date

2017-02-15

Peptides

Queuine tRNA-ribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Queuine tRNA-ribosyltransferase

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