SMTL ID : 6gbk.1

Repertoires of functionally diverse enzymes through computational design at epistatic active-site positions

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.1: 9 residues within 4Å: Chain A: H.25, H.27, V.71, W.101, K.139, H.171, H.200 Ligands: ZN.2, ZN.3 No protein-ligand interaction detected (PLIP) FMT.5: 9 residues within 4Å: Chain B: H.25, H.27, V.71, W.101, K.139, H.171, H.200 Ligands: ZN.6, ZN.7 No protein-ligand interaction detected (PLIP)

4 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: H.25, H.27, D.271 Ligands: FMT.1, ZN.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.25, A:H.27, A:D.271, H2O.3 ZN.3: 5 residues within 4Å: Chain A: W.101, H.171, H.200 Ligands: FMT.1, ZN.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.171, A:H.200, H2O.3, H2O.5 ZN.6: 5 residues within 4Å: Chain B: H.25, H.27, D.271 Ligands: FMT.5, ZN.7 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.25, B:H.27, B:D.271, H2O.9 ZN.7: 5 residues within 4Å: Chain B: W.101, H.171, H.200 Ligands: FMT.5, ZN.6 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.171, B:H.200, H2O.9, H2O.10

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.4: 8 residues within 4Å: Chain A: H.200, D.203, D.223, G.224, H.227, L.241, R.250, D.271 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.223, A:H.227, A:R.250, A:R.250 Water bridges: A:D.203, A:L.241

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Khersonsky, O. et al., Automated Design of Efficient and Functionally Diverse Enzyme Repertoires. Mol. Cell (2018)

Release Date

2018-10-24

Peptides

Parathion hydrolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Parathion hydrolase