SMTL ID : 3c1m.3 (2 other biounits)

Cyrstal Structure of threonine-sensitive aspartokinase from Methanococcus jannaschii with MgAMP-PNP and L-aspartate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: K.266 Ligands: ANP.3 No protein-ligand interaction detected (PLIP) MG.5: 2 residues within 4Å: Chain B: D.211 Ligands: ANP.7 No protein-ligand interaction detected (PLIP)

2 x ASP: ASPARTIC ACID(Non-covalent)

ASP.2: 9 residues within 4Å: Chain A: S.40, T.46, E.130, F.193, R.207, G.208, G.209, S.210 Ligands: ANP.3 15 PLIP interactions: 11 interactions with chain A, 4 Ligand-Ligand interactions Hydrogen bonds: A:S.40, A:T.46, A:G.208, A:G.209, A:S.210, A:S.210, D.2, D.2, D.2, D.2 Water bridges: A:K.6, A:K.6, A:N.47 Salt bridges: A:K.6, A:R.207 ASP.6: 9 residues within 4Å: Chain B: S.40, T.46, E.130, F.193, R.207, G.208, G.209, S.210 Ligands: ANP.7 14 PLIP interactions: 13 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: B:F.193 Hydrogen bonds: B:S.40, B:T.46, B:E.130, B:G.208, B:G.208, B:S.210, D.6 Water bridges: B:K.6, B:T.46, B:T.46, B:D.211 Salt bridges: B:K.6, B:R.207

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.3: 20 residues within 4Å: Chain A: K.6, G.8, G.9, S.40, D.211, T.230, D.231, V.232, G.234, V.235, Y.236, T.238, D.239, P.240, R.241, A.265, K.266, V.267 Ligands: MG.1, ASP.2 21 PLIP interactions: 16 interactions with chain A, 5 Ligand-Ligand interactions Hydrogen bonds: A:K.6, A:K.6, A:G.9, A:S.40, A:D.231, A:Y.236, A:Y.236, A:R.241, A:R.241, A:K.266, D.2, D.2 Water bridges: A:G.8, A:G.8, A:T.10, A:T.10, A:T.10, D.2, D.2, D.2 Salt bridges: A:K.266 ANP.7: 20 residues within 4Å: Chain B: K.6, G.8, G.9, S.40, W.229, T.230, D.231, V.232, G.234, V.235, Y.236, T.238, D.239, P.240, R.241, A.265, K.266, V.267 Ligands: MG.5, ASP.6 23 PLIP interactions: 20 interactions with chain B, 3 Ligand-Ligand interactions Hydrogen bonds: B:K.6, B:K.6, B:G.9, B:S.40, B:T.230, B:D.231, B:Y.236, B:Y.236, B:R.241, B:R.241, B:K.266, D.6, D.6 Water bridges: B:T.10, B:T.10, B:T.10, B:S.11, B:G.208, B:D.211, B:D.239, B:D.239, D.6 Salt bridges: B:K.266

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.4: 6 residues within 4Å: Chain A: L.126, G.165, F.193, T.204, G.206, R.207 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.204, A:G.206 Water bridges: A:R.207 FMT.8: 3 residues within 4Å: Chain B: E.82, I.84, K.85 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:I.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, X. et al., The Structural Basis for Allosteric Inhibition of a Threonine-sensitive Aspartokinase. J.Biol.Chem. (2008)

Release Date

2008-03-25

Peptides

Probable aspartokinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Probable aspartokinase

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