SMTL ID : 3wc0.8 (11 other biounits)

Crystal structure of C. albicans tRNA(His) guanylyltransferase (Thg1) with GTP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.03 Å

Oligo State

homo-dimer

Ligands

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

GTP.1: 18 residues within 4Å: Chain A: D.32, G.33, G.35, F.36, H.37, S.40, F.45, E.46, K.47, P.48, N.49, D.50, S.78, D.79 Ligands: GTP.2, MG.3, MG.4, MG.5 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:G.33, A:G.35, A:F.36, A:H.37, A:H.37, A:S.40, A:E.46, A:E.46, A:D.50 pi-Stacking: A:F.45 GTP.2: 11 residues within 4Å: Chain A: R.30, R.135, W.151, R.152, D.155 Chain B: E.10, K.13, R.95, K.98 Ligands: GTP.1, MG.5 9 PLIP interactions: 5 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:K.13, A:R.152 Salt bridges: B:E.10, B:K.13, B:R.95, B:K.98, A:R.30, A:R.135, A:R.135 GTP.6: 17 residues within 4Å: Chain B: D.32, G.33, G.35, F.36, H.37, S.40, F.45, E.46, K.47, P.48, N.49, D.50, S.78, D.79 Ligands: MG.8, MG.9, MG.10 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:G.35, B:F.36, B:H.37, B:S.40, B:E.46, B:E.46, B:D.50 pi-Stacking: B:F.45 GTP.7: 9 residues within 4Å: Chain A: E.10, K.13, R.95, K.98 Chain B: R.30, R.135, W.151, R.152 Ligands: MG.10 10 PLIP interactions: 6 interactions with chain A, 4 interactions with chain B Salt bridges: A:E.10, A:K.13, A:K.13, A:R.95, A:K.98, B:R.30, B:R.135, B:R.135 pi-Cation interactions: A:K.13 Hydrogen bonds: B:D.155

6 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: D.32, S.78, D.79 Ligands: GTP.1, MG.4 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.32, A:D.79 MG.4: 5 residues within 4Å: Chain A: D.32, G.33, D.79 Ligands: GTP.1, MG.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.32, A:D.32, A:G.33, A:D.79 MG.5: 4 residues within 4Å: Chain A: D.32 Chain B: K.98 Ligands: GTP.1, GTP.2 No protein-ligand interaction detected (PLIP) MG.8: 5 residues within 4Å: Chain B: D.32, D.79, E.80 Ligands: GTP.6, MG.9 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.32, B:D.79 MG.9: 5 residues within 4Å: Chain B: D.32, G.33, D.79 Ligands: GTP.6, MG.8 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.32, B:G.33, B:D.79 MG.10: 4 residues within 4Å: Chain A: K.98 Chain B: R.135 Ligands: GTP.6, GTP.7 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakamura, A. et al., Structural basis of reverse nucleotide polymerization. Proc.Natl.Acad.Sci.USA (2013)

Release Date

2013-12-18

Peptides

Likely histidyl tRNA-specific guanylyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

Likely histidyl tRNA-specific guanylyltransferase

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