SMTL ID : 7ov9.1

Heterodimeric tRNA-Guanine Transglycosylase from mouse, apo-structure

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-1-1-mer

Ligands

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 4 residues within 4Å: Chain A: L.234, H.235, S.238, R.267 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.234, A:S.238 Salt bridges: A:H.235, A:R.267 SO4.2: 4 residues within 4Å: Chain A: Q.342, H.366, M.370 Chain B: R.72 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Water bridges: B:R.72 Salt bridges: B:R.72, A:H.366 Hydrogen bonds: A:Q.342 SO4.5: 3 residues within 4Å: Chain A: G.120, G.121 Chain B: H.327 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Salt bridges: B:H.327 Water bridges: A:G.120, A:G.121 SO4.6: 3 residues within 4Å: Chain B: P.362, D.363, R.366 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.363 Water bridges: B:D.363, B:R.366 Salt bridges: B:R.366 SO4.7: 2 residues within 4Å: Chain B: P.6, R.7 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.7 Water bridges: B:S.4 SO4.8: 2 residues within 4Å: Chain B: K.295, K.296 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.296

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: C.352, C.354, C.357, H.383 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.352, A:C.354, A:C.357, A:H.383 ZN.9: 4 residues within 4Å: Chain B: C.309, C.311, C.314, H.340 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.309, B:C.311, B:C.314, B:H.340

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.4: 7 residues within 4Å: Chain A: E.282, R.283, G.284, K.337, L.369, M.370, N.372 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.337 Water bridges: A:N.335 PG4.12: 7 residues within 4Å: Chain B: P.287, N.306, Q.347, L.348, F.364, N.367, T.371 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.306

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.10: 12 residues within 4Å: Chain B: G.41, T.42, T.45, I.49, T.50, T.51, C.62, L.63, G.64, M.88, W.90, L.94 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:G.41, B:T.42, B:I.49, B:T.51, B:L.63 Water bridges: B:T.51, B:N.65 PGE.11: 7 residues within 4Å: Chain B: S.223, G.224, E.226, S.227, K.228, F.231, D.258 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.258, B:D.258 Water bridges: B:K.228, B:K.228, B:K.228

1 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.13: 7 residues within 4Å: Chain B: R.7, I.8, M.9, R.10, E.24, R.26, T.31 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.26, B:T.31

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sebastiani, M. et al., Structural and Biochemical Investigation of the Heterodimeric Murine tRNA-Guanine Transglycosylase. Acs Chem.Biol. (2022)

Release Date

2022-06-22

Peptides

Queuine tRNA-ribosyltransferase accessory subunit 2: A
Queuine tRNA-ribosyltransferase catalytic subunit 1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Queuine tRNA-ribosyltransferase accessory subunit 2

Queuine tRNA-ribosyltransferase catalytic subunit 1

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