SMTL ID : 5hxx.1

Crystal structure of AspAT from Corynebacterium glutamicum

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

1 x PMP: 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE(Non-covalent)

PMP.1: 15 residues within 4Å: Chain A: A.102, S.103, S.104, L.105, Y.142, V.186, N.191, D.220, A.222, Y.223, S.256, S.258, K.259 Chain B: Y.73 Ligands: AKG.2 16 PLIP interactions: 15 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Y.142, A:V.186, A:A.222 Hydrogen bonds: A:S.104, A:S.104, A:L.105, A:N.191, A:Y.223, A:Y.223, A:S.256, A:S.258, A:K.259, B:Y.73 Water bridges: A:S.104, A:G.264 pi-Stacking: A:Y.142

1 x AKG: 2-OXOGLUTARIC ACID(Non-covalent)

AKG.2: 10 residues within 4Å: Chain A: G.40, K.41, Y.142, R.144, N.191, K.259, F.351 Chain B: Y.73, I.289 Ligands: PMP.1 8 PLIP interactions: 2 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:Y.73, B:I.289 Hydrogen bonds: A:N.191 Water bridges: A:G.40, A:R.144, A:N.191 Salt bridges: A:R.144, A:K.259

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: R.13, L.16, F.17, D.20 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.20, A:D.20 GOL.6: 6 residues within 4Å: Chain B: F.189, G.194, F.195, T.196, P.346, A.347 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.196, B:A.347 Water bridges: B:T.196, B:V.345 GOL.7: 5 residues within 4Å: Chain B: A.336, G.339, A.341, Q.342, W.343 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.339 Water bridges: B:V.340, B:A.341, B:A.341, B:W.343

1 x PLP: PYRIDOXAL-5'-PHOSPHATE(Non-covalent)

PLP.4: 14 residues within 4Å: Chain A: Y.73 Chain B: S.103, S.104, L.105, Y.142, V.186, N.191, D.220, A.222, Y.223, S.256, S.258, K.259 Ligands: GLU.5 14 PLIP interactions: 13 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: B:Y.142, B:Y.142, B:V.186, B:A.222, B:Y.223, E.5 Hydrogen bonds: B:S.104, B:L.105, B:N.191, B:Y.223, B:S.256, B:S.256, B:S.258 Water bridges: B:S.103

1 x GLU: GLUTAMIC ACID(Non-covalent)

GLU.5: 10 residues within 4Å: Chain A: Y.73, I.289 Chain B: R.39, G.40, K.41, Y.142, R.144, K.259, R.394 Ligands: PLP.4 17 PLIP interactions: 14 interactions with chain B, 3 interactions with chain A, Hydrophobic interactions: B:K.41, A:Y.73, A:Y.73, A:I.289 Hydrogen bonds: B:G.40, B:Y.142, B:K.259 Water bridges: B:R.39, B:R.39, B:R.144, B:R.394, B:R.394 Salt bridges: B:R.39, B:K.41, B:R.144, B:R.144, B:R.394

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Son, H.-F. et al., Structural insights into a novel class of aspartate aminotransferase from Corynebacterium glutamicum. To be published

Release Date

2016-02-24

Peptides

ASPARTATE AMINOTRANSFERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ASPARTATE AMINOTRANSFERASE