SMTL ID : 3l76.1

Crystal Structure of Aspartate Kinase from Synechocystis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.54 Å

Oligo State

homo-dimer

Ligands

4 x THR: THREONINE(Non-covalent)

THR.1: 9 residues within 4Å: Chain A: D.280, R.281, P.282, G.283, V.284, A.285, Q.304, N.557, I.558 10 PLIP interactions: 8 interactions with chain A, 2 Ligand-Ligand interactions Hydrogen bonds: A:G.283, A:V.284, A:A.285, A:Q.304, A:N.557, A:N.557, A:I.558, T.1, T.1 Water bridges: A:S.286 THR.2: 10 residues within 4Å: Chain A: N.385, I.386, V.452, D.454, R.455, P.456, G.457, M.458, A.459, Q.478 12 PLIP interactions: 10 interactions with chain A, 2 Ligand-Ligand interactions Hydrophobic interactions: A:V.452 Hydrogen bonds: A:N.385, A:N.385, A:I.386, A:D.454, A:G.457, A:M.458, A:A.459, A:Q.478, T.2, T.2 Water bridges: A:A.460 THR.6: 11 residues within 4Å: Chain B: N.385, I.386, V.452, D.454, R.455, P.456, G.457, M.458, A.459, Q.478, I.493 13 PLIP interactions: 11 interactions with chain B, 2 Ligand-Ligand interactions Hydrophobic interactions: B:I.386, B:A.459 Hydrogen bonds: B:N.385, B:I.386, B:P.453, B:D.454, B:D.454, B:G.457, B:M.458, B:A.459, B:Q.478, T.6, T.6 THR.7: 11 residues within 4Å: Chain B: D.280, R.281, P.282, G.283, V.284, A.285, Q.304, N.312, I.314, N.557, I.558 12 PLIP interactions: 10 interactions with chain B, 2 Ligand-Ligand interactions Hydrophobic interactions: B:N.312 Hydrogen bonds: B:D.280, B:G.283, B:V.284, B:A.285, B:Q.304, B:N.557, B:N.557, B:I.558, T.7, T.7 Water bridges: B:S.286

4 x LYS: LYSINE(Non-covalent)

LYS.3: 13 residues within 4Å: Chain A: D.298, I.299, D.300, M.537, H.540, P.541, G.542, V.543, A.544, T.563, S.564, E.565, I.568 11 PLIP interactions: 10 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:I.568 Hydrogen bonds: A:D.298, A:I.299, A:D.300, A:G.542, A:V.543, A:A.544, A:T.563 Water bridges: A:G.539, A:A.545, K.3 LYS.4: 11 residues within 4Å: Chain A: M.365, R.368, P.369, G.370, I.371, A.372, S.392, E.393, S.472, V.473, D.474 10 PLIP interactions: 10 interactions with chain A, Hydrogen bonds: A:R.368, A:G.370, A:I.371, A:A.372, A:E.393, A:S.472, A:V.473 Water bridges: A:G.367, A:A.373, A:E.393 LYS.8: 13 residues within 4Å: Chain B: D.298, I.299, D.300, M.537, H.540, P.541, G.542, V.543, A.544, T.563, S.564, E.565, I.568 10 PLIP interactions: 10 interactions with chain B, Hydrophobic interactions: B:I.568 Hydrogen bonds: B:D.298, B:D.298, B:I.299, B:G.542, B:V.543, B:A.544, B:T.563, B:S.564 Water bridges: B:A.545 LYS.9: 11 residues within 4Å: Chain B: M.365, R.368, P.369, G.370, I.371, A.372, S.392, E.393, S.472, V.473, D.474 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:R.368, B:G.370, B:I.371, B:A.372, B:V.473, B:D.474 Water bridges: B:R.368

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

SO4.5: 5 residues within 4Å: Chain A: R.277, D.308, N.310, S.311, R.483 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.310, A:N.310, A:S.311 Salt bridges: A:R.277, A:R.483

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Robin, A.Y. et al., A new mode of dimerization of allosteric enzymes with ACT domains revealed by the crystal structure of the aspartate kinase from Cyanobacteria. J.Mol.Biol. (2010)

Release Date

2010-06-09

Peptides

Aspartokinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Aspartokinase