SMTL ID : 8e9l.1

Crystal structure of E. coli aspartate aminotransferase mutant VFIT in the ligand-free form at 278 K

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.31 Å

Oligo State

homo-dimer

Ligands

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

PLP.1: 18 residues within 4Å: Chain A: G.112, G.113, T.114, L.117, W.140, H.143, H.188, N.193, D.221, A.223, Y.224, S.253, S.255, K.256, R.264, F.358 Chain B: Y.75 Ligands: SO4.2 17 PLIP interactions: 13 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:A.223 Hydrogen bonds: A:G.113, A:T.114, A:T.114, A:N.193, A:Y.224, A:S.253, A:S.255, A:K.256, B:Y.75 Salt bridges: A:K.256, A:R.264 pi-Stacking: A:W.140, A:W.140 Water bridges: B:R.290, B:R.290, B:N.295 PLP.3: 18 residues within 4Å: Chain A: Y.75 Chain B: G.112, G.113, T.114, L.117, W.140, H.143, H.188, N.193, D.221, A.223, Y.224, S.253, S.255, K.256, R.264, F.358 Ligands: SO4.4 15 PLIP interactions: 3 interactions with chain A, 12 interactions with chain B Hydrogen bonds: A:Y.75, B:G.113, B:T.114, B:T.114, B:N.193, B:Y.224, B:S.253, B:S.255, B:K.256 Water bridges: A:R.290, A:N.295 Salt bridges: B:K.256, B:R.264 pi-Stacking: B:W.140, B:W.140

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

SO4.2: 11 residues within 4Å: Chain A: I.23, I.43, G.44, W.140, N.193, Y.224, K.256, F.358, R.384 Chain B: R.290 Ligands: PLP.1 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.44, A:W.140, A:N.193, A:Y.224, A:Y.224 Salt bridges: A:K.256, A:R.384 SO4.4: 11 residues within 4Å: Chain A: R.290 Chain B: I.23, I.43, G.44, W.140, N.193, Y.224, K.256, F.358, R.384 Ligands: PLP.3 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:G.44, B:W.140, B:N.193, B:Y.224, B:Y.224 Salt bridges: B:K.256, B:R.384

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

St-Jacques, A.D. et al., Computational remodeling of an enzyme conformational landscape for altered substrate selectivity. Nat Commun (2023)

Release Date

2022-10-05

Peptides

Aspartate aminotransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Aspartate aminotransferase

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