SMTL ID : 3crr.1

Structure of tRNA Dimethylallyltransferase: RNA Modification through a Channel

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: T.19 Ligands: CL.2, DPO.3 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.19, H2O.3, H2O.3, H2O.4

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 6 residues within 4Å: Chain A: D.37, L.40, T.49 Ligands: MG.1, DPO.3, TRS.4 Ligand excluded by PLIP

1 x DPO: DIPHOSPHATE(Non-covalent)

DPO.3: 11 residues within 4Å: Chain A: P.13, T.14, A.15, A.16, G.17, K.18, T.19, R.223 Ligands: MG.1, CL.2, TRS.4 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:P.13, A:A.15, A:A.16, A:G.17, A:K.18, A:T.19 Water bridges: A:K.18, A:K.18, A:T.19, A:T.19, A:T.19, A:D.20, A:D.37, A:R.223 Salt bridges: A:K.18, A:K.18, A:R.223

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.4: 12 residues within 4Å: Chain A: T.14, D.37, A.39, G.48, T.49, A.50, R.223, M.227, V.255, L.284 Ligands: CL.2, DPO.3 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:T.49 Water bridges: A:A.39, A:G.48, A:R.223, A:V.255, A:V.255, A:Q.288

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xie, W. et al., Structure of tRNA Dimethylallyltransferase: RNA Modification through a Channel. J.Mol.Biol. (2007)

Release Date

2008-04-29

Peptides

tRNA delta(2)-isopentenylpyrophosphate transferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

tRNA delta(2)-isopentenylpyrophosphate transferase

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