SMTL ID : 4nbj.3 (3 other biounits)

D-aminoacyl-tRNA deacylase (DTD) from Plasmodium falciparum in complex with D-tyrosyl-3'-aminoadenosine at 2.20 Angstrom resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x D3Y: 3'-deoxy-3'-(D-tyrosylamino)adenosine(Non-covalent)

D3Y.1: 17 residues within 4Å: Chain A: L.41, G.42, I.43, S.87, Q.88, F.89, T.90, A.106, K.107, A.112, F.137, G.138, N.139, M.141 Chain B: W.72, G.149, P.150 11 PLIP interactions: 8 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:F.89, B:W.72 Hydrogen bonds: A:I.43, A:I.43, A:S.87, A:Q.88, A:F.89, A:K.107, A:G.138, B:G.149 Water bridges: B:N.66 D3Y.2: 14 residues within 4Å: Chain A: G.149, P.150 Chain B: L.41, G.42, I.43, S.87, Q.88, F.89, T.90, A.106, K.107, A.112, F.137, G.138 12 PLIP interactions: 10 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.89, B:T.90 Hydrogen bonds: B:I.43, B:I.43, B:S.87, B:Q.88, B:F.89, B:T.90, B:K.107, B:G.138, A:G.149 pi-Stacking: A:W.72

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ahmad, S. et al., Mechanism of chiral proofreading during translation of the genetic code. Elife (2013)

Release Date

2013-12-18

Peptides

D-tyrosyl-tRNA(Tyr) deacylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

D-tyrosyl-tRNA(Tyr) deacylase

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