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

Crystal Structure of Methionyl-tRNA synthetase (MetRS) from Acinetobacter baumannii with bound L-Methionine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x NA: SODIUM ION(Non-functional Binders)

NA.1: 3 residues within 4Å: Chain A: Q.48, S.383, K.385 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.48, A:S.383, A:K.385

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.163, C.166, C.176, C.179 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.163, A:C.166, A:C.176, A:C.179

1 x MET: METHIONINE(Non-covalent)

MET.3: 9 residues within 4Å: Chain A: L.31, Y.33, D.70, W.272, A.275, P.276, Y.279, I.316, H.320 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:W.272 Hydrogen bonds: A:L.31, A:D.70, M.3 Water bridges: A:Y.33

7 x NO3: NITRATE ION(Non-functional Binders)

NO3.4: 2 residues within 4Å: Chain A: S.434, I.538 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.434 NO3.5: 7 residues within 4Å: Chain A: N.35, G.36, R.79, N.83, Q.90, V.94, E.97 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.79, A:N.83, A:Q.90, A:Q.90 NO3.6: 4 residues within 4Å: Chain A: K.160, D.170, R.192 Ligands: NO3.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.160, A:R.192 NO3.7: 5 residues within 4Å: Chain A: K.160, R.192, S.193, T.194 Ligands: NO3.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.192, A:S.193 Water bridges: A:K.160 NO3.8: 4 residues within 4Å: Chain A: Y.318, F.319, F.323 Ligands: NO3.9 No protein-ligand interaction detected (PLIP) NO3.9: 3 residues within 4Å: Chain A: W.240, Y.318 Ligands: NO3.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.240 NO3.10: 4 residues within 4Å: Chain A: L.366, Q.367, H.368, L.369 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.368 Water bridges: A:L.366, A:L.369, A:N.370

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dranow, D.M. et al., Crystal Structure of Methionyl-tRNA synthetase (MetRS) from Acinetobacter baumannii with bound L-Methionine. to be published

Release Date

2017-02-22

Peptides

Methionine--tRNA ligase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Methionine--tRNA ligase

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