SMTL ID : 8tc7.1 (1 other biounit)

Human asparaginyl-tRNA synthetase, apo form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: E.359, D.360, S.361, R.362 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.361 Water bridges: A:P.358, A:E.359 GOL.2: 5 residues within 4Å: Chain A: Y.73, N.74, L.77, L.112 Ligands: GOL.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.74 GOL.3: 2 residues within 4Å: Chain A: L.115 Ligands: GOL.2 No protein-ligand interaction detected (PLIP) GOL.4: 5 residues within 4Å: Chain A: M.156, R.159, D.163, S.273, P.274 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.159, A:D.163 GOL.5: 4 residues within 4Å: Chain A: H.308, D.309, V.310, L.331 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.309, A:T.335 GOL.6: 10 residues within 4Å: Chain A: R.154, Q.224, E.239, Y.240, T.241, E.426, C.442, L.443 Chain B: T.174, P.175 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.224, A:L.443 Water bridges: A:Y.444 GOL.7: 3 residues within 4Å: Chain A: N.136, N.137 Chain B: Y.405 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.137, A:N.137 GOL.8: 5 residues within 4Å: Chain B: L.77, S.79, A.116, P.117, A.118 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.77, B:A.116, B:A.118 GOL.9: 5 residues within 4Å: Chain B: M.156, R.159, D.163, S.273, P.274 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.159, B:D.163 Water bridges: B:R.269 GOL.10: 10 residues within 4Å: Chain A: T.174, P.175 Chain B: R.154, Q.224, E.239, Y.240, T.241, E.426, C.442, L.443 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.154, B:Q.224, B:Q.224, B:T.241, B:L.443, A:T.174 Water bridges: B:Y.444

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xie, S.C. et al., Reaction hijacking inhibition of Plasmodium falciparum asparagine tRNA synthetase. Nat Commun (2024)

Release Date

2024-02-07

Peptides

Asparagine--tRNA ligase, cytoplasmic: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

Asparagine--tRNA ligase, cytoplasmic

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