SMTL ID : 8g1y.1 (1 other biounit)

Crystal Structure of the Threonine Synthase from Streptococcus pneumoniae in complex with Pyridoxal 5-phosphate.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.43 Å

Oligo State

monomer

Ligands

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

CL.1: 2 residues within 4Å: Chain A: H.191, I.193 Ligand excluded by PLIP

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

NA.2: 2 residues within 4Å: Chain A: V.43, I.284 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.43, A:I.284 NA.3: 1 residues within 4Å: Chain A: Y.124 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.124 NA.4: 2 residues within 4Å: Chain A: E.261, K.421 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.421, A:K.421 Water bridges: A:V.258, A:K.421

1 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.5: 16 residues within 4Å: Chain A: F.114, K.115, D.148, P.268, T.269, G.270, N.271, F.272, G.273, N.274, S.323, M.324, H.401, T.427, A.428 Ligands: GOL.6 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:F.114, A:K.115, A:A.428 Hydrogen bonds: A:D.148, A:G.270, A:N.271, A:F.272, A:G.273, A:N.274, A:S.323, A:T.427 Water bridges: A:N.271, A:F.272, A:N.274, A:I.275 Salt bridges: A:K.115 pi-Stacking: A:F.114

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 10 residues within 4Å: Chain A: F.114, S.231, R.236, Q.240, N.271, F.272, G.273, N.274, N.331 Ligands: PLP.5 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.236, A:R.236, A:Q.240, A:N.271, A:G.273, A:N.331 Water bridges: A:N.271 GOL.7: 6 residues within 4Å: Chain A: K.97, L.98, D.99, G.100, Q.101, Y.102 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.98 Water bridges: A:D.99 GOL.8: 6 residues within 4Å: Chain A: Q.56, E.57, K.60, D.76, I.79, N.80 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.76, A:N.80, A:N.80 Water bridges: A:K.60, A:K.60 GOL.9: 8 residues within 4Å: Chain A: S.175, I.177, Q.178, K.432, F.433, P.434, V.435, D.449 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.175, A:K.432, A:V.435 Water bridges: A:Q.178, A:V.436 GOL.10: 5 residues within 4Å: Chain A: K.138, E.164, L.224, Y.494, L.495 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.138, A:E.164 Water bridges: A:Y.494, A:L.495

1 x MLT: D-MALATE(Non-covalent)

MLT.11: 5 residues within 4Å: Chain A: Q.26, F.210, R.216, F.226, S.227 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:F.226, A:F.226, A:F.226 Water bridges: A:R.216, A:R.216, A:Q.225, A:Q.225, A:Q.225 Salt bridges: A:R.216

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Minasov, G. et al., Crystal Structure of the Threonine Synthase from Streptococcus pneumoniae in complex with Pyridoxal 5-phosphate. To Be Published

Release Date

2023-02-15

Peptides

Threonine synthase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Threonine synthase

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