SMTL ID : 2c2b.1 (2 other biounits)

Crystallographic structure of Arabidopsis thaliana Threonine synthase complexed with pyridoxal phosphate and S-adenosylmethionine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

4 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.1: 16 residues within 4Å: Chain A: K.98, S.99, T.100, W.101, P.102, Y.103, G.104, S.105, S.125, F.127 Chain B: N.132, L.133, W.150, Q.281, F.282 Ligands: SAM.2 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:N.132, B:L.133, A:P.102, A:G.104, A:S.105, A:S.125, A:F.127 SAM.2: 6 residues within 4Å: Chain A: W.101 Chain B: W.135, K.141, N.147, W.150 Ligands: SAM.1 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain B Water bridges: A:W.101, A:I.123, A:S.125 pi-Stacking: A:W.101, A:W.101, A:W.101 Hydrogen bonds: B:N.147 Salt bridges: B:K.141 pi-Cation interactions: B:W.135 SAM.5: 15 residues within 4Å: Chain A: N.132, L.133, W.150, Q.281, F.282 Chain B: S.99, T.100, W.101, P.102, Y.103, G.104, S.105, S.125, F.127 Ligands: SAM.6 10 PLIP interactions: 5 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:S.131, A:N.132, A:L.133, A:Q.281, B:G.104, B:S.105, B:S.125, B:S.125, B:F.127 Salt bridges: A:R.426 SAM.6: 6 residues within 4Å: Chain A: W.135, K.141, N.147, W.150 Chain B: W.101 Ligands: SAM.5 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A pi-Stacking: B:W.101, B:W.101, B:W.101 Hydrophobic interactions: A:W.135 Hydrogen bonds: A:N.147 Salt bridges: A:K.141 pi-Cation interactions: A:W.135

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.3: 2 residues within 4Å: Chain A: D.122, K.179 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.122, A:K.179

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

PLP.4: 13 residues within 4Å: Chain A: F.162, K.163, D.194, G.294, G.295, N.296, L.297, G.298, N.299, A.356, H.404, T.432, A.433 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:K.163, A:A.356, A:A.433 Hydrogen bonds: A:K.163, A:D.194, A:G.295, A:N.296, A:L.297, A:G.298, A:N.299 pi-Stacking: A:F.162 PLP.7: 10 residues within 4Å: Chain B: F.162, K.163, S.191, D.194, T.195, S.262, R.267, Q.271, N.296, N.299 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:K.163, B:N.296 Hydrogen bonds: B:D.194, B:T.195, B:Q.271, B:Q.271, B:N.299 Salt bridges: B:K.163 pi-Cation interactions: B:R.267

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mas-Droux, C. et al., Allosteric Threonine Synthase: Reorganization of the Pyridoxal Phosphate Site Upon Asymmetric Activation Through S-Adenosylmethionine Binding to a Novel Site. J.Biol.Chem. (2006)

Release Date

2005-11-28

Peptides

THREONINE SYNTHASE 1, CHLOROPLASTIC: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

THREONINE SYNTHASE 1, CHLOROPLASTIC

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