SMTL ID : 5xox.2 (1 other biounit)

Crystal structure of tRNA(His) guanylyltranserase from Saccharomyces cerevisiae

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-tetramer

Ligands

2 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.1: 16 residues within 4Å: Chain A: D.29, K.31, K.32, F.33, H.34, S.37, F.42, A.43, K.44, P.45, D.47, L.51, S.76, D.77 Ligands: MG.2, MG.3 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:K.32, A:F.33, A:H.34, A:H.34, A:S.37, A:F.42, A:A.43, A:D.47 Salt bridges: A:K.32 GTP.5: 16 residues within 4Å: Chain C: D.29, K.31, K.32, F.33, H.34, S.37, F.42, A.43, K.44, P.45, D.47, L.51, S.76, D.77 Ligands: MG.6, MG.7 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:K.32, C:F.33, C:H.34, C:H.34, C:S.37, C:F.42, C:A.43, C:D.47 Salt bridges: C:K.32

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: D.29, E.75, D.77, E.78 Ligands: GTP.1 No protein-ligand interaction detected (PLIP) MG.3: 4 residues within 4Å: Chain A: D.29, G.30, D.77 Ligands: GTP.1 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.29, A:G.30, A:D.77 MG.6: 5 residues within 4Å: Chain C: D.29, E.75, D.77, E.78 Ligands: GTP.5 No protein-ligand interaction detected (PLIP) MG.7: 4 residues within 4Å: Chain C: D.29, G.30, D.77 Ligands: GTP.5 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.29, C:G.30, C:D.77

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.4: 4 residues within 4Å: Chain A: R.133 Chain C: H.15, R.93, K.96 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain A Salt bridges: C:H.15, C:R.93, C:K.96, A:R.133 PO4.8: 4 residues within 4Å: Chain A: H.15, R.93, K.96 Chain C: R.133 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain C Salt bridges: A:H.15, A:R.93, A:K.96, C:R.133

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, K. et al., Crystal structure of tRNA(His) guanylyltransferase from Saccharomyces cerevisiae. Biochem. Biophys. Res. Commun. (2017)

Release Date

2017-07-12

Peptides

tRNA(His) guanylyltransferase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
E

D
F

tRNA(His) guanylyltransferase

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