SMTL ID : 6l1n.1

Substrate bound BacF structure from Bacillus subtillis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x GLY: GLYCINE(Non-covalent)

GLY.1: 9 residues within 4Å: Chain A: E.16, G.40, Y.128, N.178, Y.209, K.239, Y.325, R.367 Ligands: PLP.2 8 PLIP interactions: 2 Ligand-Ligand interactions, 6 interactions with chain A Hydrogen bonds: G.1, G.1, A:G.40, A:N.178, A:K.239, A:Y.325, A:Y.325 Salt bridges: A:R.367 GLY.4: 8 residues within 4Å: Chain A: Y.66 Chain B: Q.39, G.40, Y.128, N.178, Y.325, R.367 Ligands: PLP.3 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:G.40, B:N.178, A:Y.66 Salt bridges: B:R.367

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

PLP.2: 16 residues within 4Å: Chain A: G.102, G.103, K.104, Y.128, Y.131, N.174, N.178, D.206, A.208, Y.209, S.236, S.238, K.239, R.247 Chain B: Y.66 Ligands: GLY.1 14 PLIP interactions: 12 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.128, A:N.178 Hydrogen bonds: A:G.103, A:K.104, A:N.178, A:Y.209, A:S.236, A:S.238, A:K.239, A:Y.325, B:Y.66, B:Y.66 Salt bridges: A:R.247 pi-Stacking: A:Y.128 PLP.3: 15 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 Ligands: GLY.4 15 PLIP interactions: 13 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.128, B:N.178 Hydrogen bonds: B:G.103, B:K.104, B:N.178, B:Y.209, B:S.236, B:S.238, B:K.239, B:Y.325, 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
A

B
B

Aminotransferase

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