SMTL ID : 6l1o.1

Product bound BacF structure from Bacillus subtillis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

1 x TYR: TYROSINE(Non-covalent)

TYR.1: 13 residues within 4Å: Chain A: F.17, Q.39, G.40, K.104, Y.128, E.130, N.178, Y.325, R.367 Chain B: Y.66, F.69, V.270 Ligands: PMP.2 10 PLIP interactions: 7 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:F.17, A:Q.39, B:Y.66, B:V.270 Hydrogen bonds: A:G.40, A:E.130, A:N.178 Salt bridges: A:R.367 pi-Stacking: A:F.17, B:Y.66

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

PMP.2: 15 residues within 4Å: Chain A: G.102, G.103, K.104, Y.128, Y.131, N.174, N.178, D.206, Y.209, S.236, S.238, K.239, R.247 Chain B: Y.66 Ligands: TYR.1 14 PLIP interactions: 1 Ligand-Ligand interactions, 11 interactions with chain A, 2 interactions with chain B Hydrogen bonds: Y.1, A:G.103, A:K.104, A:N.178, A:Y.209, A:S.236, A:S.238, A:K.239, B:Y.66, B:Y.66 Hydrophobic interactions: A:Y.128, A:N.178 Salt bridges: A:R.247 pi-Stacking: A:Y.128

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

PLP.3: 14 residues within 4Å: Chain A: Y.66 Chain B: G.102, G.103, K.104, Y.128, N.174, N.178, D.206, A.208, Y.209, S.236, S.238, K.239, R.247 16 PLIP interactions: 14 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.128, B:N.178, B:A.208 Hydrogen bonds: B:G.103, B:K.104, B:Y.128, B:N.178, B:Y.209, B:S.236, B:S.238, B:K.239, A:Y.66, A:Y.66 Salt bridges: B:K.239, B:R.247 pi-Stacking: B:Y.128

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Deshmukh, A. et al., Structural insights into the catalytic mechanism of Bacillus subtilis BacF. Acta Crystallogr.,Sect.F (2020)

Release Date

2020-03-18

Peptides

Aminotransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Aminotransferase

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