SMTL ID : 9ymm.2 (1 other biounit)

Crystal structure of Glutamate--tRNA ligase (GltX) from Moraxella catarrhalis in complex with 5'-O-(N-Glutamyl)sulfamoyladeonosine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.92 Å

Oligo State

homo-dimer

Ligands

2 x GSU: O5'-(L-GLUTAMYL-SULFAMOYL)-ADENOSINE(Non-covalent)

GSU.1: 18 residues within 4Å: Chain A: R.29, A.31, P.32, S.33, G.41, T.42, Y.44, I.45, E.65, Y.217, N.221, R.235, G.236, E.238, W.239, L.265, L.266, K.273 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:Y.217, A:W.239 Hydrogen bonds: A:A.31, A:S.33, A:T.42, A:E.65, A:Y.217, A:N.221, A:N.221, A:G.236, A:E.238, A:L.266, A:L.266, A:K.273 Salt bridges: A:R.29, A:R.235 GSU.8: 18 residues within 4Å: Chain B: R.29, A.31, P.32, S.33, G.41, T.42, Y.44, I.45, E.65, Y.217, N.221, R.235, G.236, E.238, W.239, P.264, L.265, L.266 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:Y.217, B:W.239 Hydrogen bonds: B:A.31, B:A.31, B:S.33, B:E.65, B:N.221, B:N.221, B:G.236, B:E.238, B:E.238, B:L.266, B:L.266 Salt bridges: B:R.29, B:R.235

20 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 4 residues within 4Å: Chain A: L.351, S.352, V.353 Chain B: R.375 Ligand excluded by PLIP SO4.3: 6 residues within 4Å: Chain A: T.67, D.68, K.210, T.216, Y.217 Ligands: SO4.6 Ligand excluded by PLIP SO4.4: 5 residues within 4Å: Chain A: G.36, F.37, H.39, K.276, E.428 Ligand excluded by PLIP SO4.5: 2 residues within 4Å: Chain A: T.73, K.74 Ligand excluded by PLIP SO4.6: 7 residues within 4Å: Chain A: T.67, D.68, Q.69, V.70, K.210, D.212 Ligands: SO4.3 Ligand excluded by PLIP SO4.7: 4 residues within 4Å: Chain A: L.307, P.308, N.309, R.327 Ligand excluded by PLIP SO4.10: 2 residues within 4Å: Chain B: S.352, V.353 Ligand excluded by PLIP SO4.11: 5 residues within 4Å: Chain B: R.140, R.177, V.203, D.204, M.205 Ligand excluded by PLIP SO4.12: 7 residues within 4Å: Chain B: T.67, D.68, K.210, P.215, T.216, Y.217 Ligands: SO4.16 Ligand excluded by PLIP SO4.13: 5 residues within 4Å: Chain B: Y.116, K.119, H.226, F.253, W.255 Ligand excluded by PLIP SO4.14: 4 residues within 4Å: Chain B: H.226, G.254, W.255, Q.256 Ligand excluded by PLIP SO4.15: 4 residues within 4Å: Chain B: Y.299, R.302, E.312, K.339 Ligand excluded by PLIP SO4.16: 2 residues within 4Å: Chain B: Q.206 Ligands: SO4.12 Ligand excluded by PLIP SO4.17: 2 residues within 4Å: Chain B: E.346, R.349 Ligand excluded by PLIP SO4.18: 6 residues within 4Å: Chain B: T.35, G.36, F.37, H.39, K.276, E.428 Ligand excluded by PLIP SO4.19: 4 residues within 4Å: Chain B: Q.69, S.72, T.73, K.74 Ligand excluded by PLIP SO4.20: 2 residues within 4Å: Chain B: P.95, R.105 Ligand excluded by PLIP SO4.21: 6 residues within 4Å: Chain B: T.67, D.68, Q.69, V.70, K.210, D.212 Ligand excluded by PLIP SO4.22: 5 residues within 4Å: Chain B: L.307, P.308, N.309, E.310, R.327 Ligand excluded by PLIP SO4.23: 3 residues within 4Å: Chain B: Q.311, E.312, K.313 Ligand excluded by PLIP

1 x 2PE: NONAETHYLENE GLYCOL(Non-covalent)

2PE.9: 10 residues within 4Å: Chain A: L.361, A.364, L.370, F.395 Chain B: I.360, L.361, A.364, S.365, I.388, F.395 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Enayati, P. et al., Crystal structure of Glutamate--tRNA ligase (GltX) from Moraxella catarrhalis in complex with 5'-O-(N-Glutamyl)sulfamoyladeonosine. To be published

Release Date

2025-10-22

Peptides

Glutamate--tRNA ligase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Glutamate--tRNA ligase

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