- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.22 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x ZN: ZINC ION(Non-covalent)
- 8 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.2: 2 residues within 4Å:- Chain A: S.17, I.18
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:I.18
- Water bridges: A:F.16, A:S.17, A:S.17, A:S.17
EDO.3: 4 residues within 4Å:- Chain A: R.38, R.60, A.61, G.63
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.38, A:R.38, A:R.60
EDO.4: 4 residues within 4Å:- Chain A: H.145, G.148, S.149, Q.192
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:H.145
- Water bridges: A:Q.192
EDO.5: 5 residues within 4Å:- Chain A: R.13, R.183, G.222, F.223, D.224
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:R.183, A:G.222
- Water bridges: A:R.13, A:R.183, A:F.223
EDO.16: 2 residues within 4Å:- Chain B: S.17, I.18
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:I.18
- Water bridges: B:F.16, B:S.17, B:S.17, B:S.17
EDO.17: 4 residues within 4Å:- Chain B: R.38, R.60, A.61, G.63
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:R.38, B:R.38, B:R.60
EDO.18: 4 residues within 4Å:- Chain B: H.145, G.148, S.149, Q.192
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:H.145, B:H.145
- Water bridges: B:Q.192
EDO.19: 5 residues within 4Å:- Chain B: R.13, R.183, G.222, F.223, D.224
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:R.183, B:G.222
- Water bridges: B:R.13, B:R.183, B:F.223
- 14 x GOL: GLYCEROL(Non-functional Binders)
GOL.6: 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:G.94, A:D.96, A:R.97
- Water bridges: A:E.57, A:R.97
GOL.7: 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.8: 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.9: 5 residues within 4Å:- Chain A: F.14, S.15, F.16, D.254, K.255
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:S.15, A:F.16, A:D.254
- Water bridges: A:F.14
GOL.10: 5 residues within 4Å:- Chain A: N.70, D.102, Y.106, Q.107
- Ligands: 6MM.13
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:N.70, A:Q.107, A:Q.107
- Water bridges: A:T.47
GOL.11: 3 residues within 4Å:- Chain A: P.252, D.254, K.255
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:D.254, A:K.255
GOL.12: 6 residues within 4Å:- Chain A: A.61, T.62, C.320, A.321, E.348, A.352
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:A.321, A:E.348, A:E.348
- Water bridges: A:T.62, A:H.319, A:Q.356
GOL.20: 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:G.94, B:D.96, B:R.97
- Water bridges: B:E.57, B:R.97
GOL.21: 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.22: 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.23: 5 residues within 4Å:- Chain B: F.14, S.15, F.16, D.254, K.255
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:S.15, B:F.16, B:D.254
- Water bridges: B:F.14
GOL.24: 5 residues within 4Å:- Chain B: N.70, D.102, Y.106, Q.107
- Ligands: 6MM.27
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:N.70, B:D.102, B:Q.107, B:Q.107
- Water bridges: B:T.47, B:T.47
GOL.25: 3 residues within 4Å:- Chain B: P.252, D.254, K.255
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:D.254, B:K.255
GOL.26: 6 residues within 4Å:- Chain B: A.61, T.62, C.320, A.321, E.348, A.352
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:A.321, B:E.348
- Water bridges: B:T.62, B:H.319, B:Q.356
- 2 x 6MM: 6-amino-2-({[(3a'R,4S,6'R,6a'R)-2,2,2',2'-tetramethyldihydro-3a'H-spiro[1,3-dioxolane-4,4'-furo[3,4-d][1,3]dioxol]-6'-yl]methyl}amino)-1,7-dihydro-8H-imidazo[4,5-g]quinazolin-8-one (non-preferred name)(Non-covalent)
6MM.13: 17 residues within 4Å:- Chain A: D.102, S.103, G.105, Y.106, D.156, C.158, I.201, Q.203, G.229, G.230, L.231, A.232, M.260, G.261, V.282, R.286
- Ligands: GOL.10
19 PLIP interactions:19 interactions with chain A- Hydrophobic interactions: A:Y.106, A:Y.106, A:M.260, A:V.282
- Hydrogen bonds: A:S.103, A:G.105, A:Y.106, A:Y.106, A:Q.203, A:G.230, A:L.231, A:A.232, A:R.286, A:R.286
- Water bridges: A:G.104, A:Q.107, A:L.231
- Salt bridges: A:D.102, A:D.156
6MM.27: 17 residues within 4Å:- Chain B: D.102, S.103, G.105, Y.106, D.156, C.158, I.201, Q.203, G.229, G.230, L.231, A.232, M.260, G.261, V.282, R.286
- Ligands: GOL.24
18 PLIP interactions:18 interactions with chain B- Hydrophobic interactions: B:Y.106, B:Y.106, B:M.260, B:V.282
- Hydrogen bonds: B:S.103, B:G.105, B:Y.106, B:Q.203, B:G.230, B:L.231, B:A.232, B:R.286, B:R.286
- Water bridges: B:G.104, B:Q.107, B:L.231
- Salt bridges: B:D.102, B:D.156
- 2 x CL: CHLORIDE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ehrmann, F.R. et al., Application of carbohydrates based lin-benzoguanines in a solvent-exposed subpocket of the tRNA-modifying Enzyme TGT. To be Published
- Release Date
- 2017-05-24
- Peptides
- Queuine tRNA-ribosyltransferase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A
SMTL ID : 5jsw.1
tRNA guanine Transglycosylase (TGT) in co-crystallized complex with 6-amino-2-((((3a'R,6'R,6a'R)-2,2,2',2'-tetramethyldihydro-3a'H-spiro[[1,3]dioxolane-4,4'-furo[3,4-d][1,3]dioxol]-6'-yl)methyl)amino)-1H-imidazo[4,5-g]quinazolin-8(7H)-one
Queuine tRNA-ribosyltransferase
Toggle Identical (AB)Related Entries With Identical Sequence
1enu.1 | 1f3e.1 | 1k4g.1 | 1k4h.1 | 1n2v.1 | 1p0b.1 | 1p0d.1 | 1p0e.1 | 1pud.1 | 1pud.2 | 1q2r.1 | 1q2r.2 | 1q2r.3 | 1q2r.4 | 1q2s.1 | 1q2s.2 | 1q2s.3 | 1q2s.4 | 1q4w.1 | 1q63.1 | 1q65.1 | 1q66.1 | 1r5y.1 | 1s38.1 | 1s39.1 | 2bbf.1 | 2pwu.1 | 2qii.1 | 2z7k.1 | 3c2y.1 more...less...3eos.1 | 3eou.1 | 3gc4.1 | 3gc5.1 | 3ge7.1 | 3rr4.1 | 3s1g.1 | 3sm0.1 | 3tll.1 | 4fps.1 | 4fr1.1 | 4fr6.1 | 4fsa.1 | 4gg9.1 | 4gh1.1 | 4gh3.1 | 4gi4.1 | 4giy.1 | 4gkt.1 | 4puj.1 | 4puk.1 | 4pun.1 | 4q4m.1 | 4q4o.1 | 4q4p.1 | 4q4q.1 | 4q4r.1 | 4q4s.1 | 4q8t.1 | 4q8u.1 | 5egr.1 | 5i03.1 | 5i06.1 | 5i07.1 | 5i09.1 | 5j9m.1 | 5j9n.1 | 5j9o.1 | 5jgm.1 | 5jgo.1 | 5jsv.1 | 5jt5.1 | 5jt6.1 | 5jt7.1 | 5jxq.1 | 5lpp.1 | 5lpq.1 | 5lps.1 | 5lpt.1 | 6fmn.1 | 6fpu.1