SMTL ID : 6l6w.1

The structure of ScoE with intermediate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.17 Å

Oligo State

homo-dimer

Ligands

2 x FE2: FE (II) ION(Non-covalent)

FE2.1: 6 residues within 4Å: Chain A: H.152, D.154, H.315, R.330 Ligands: E79.2, FMT.3 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.152, A:D.154, A:H.315, H2O.2, H2O.3 FE2.4: 6 residues within 4Å: Chain B: H.152, D.154, H.315, R.330 Ligands: E79.5, FMT.6 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.152, B:D.154, B:H.315, H2O.8, H2O.9

2 x E79: (3R)-3-[[(1R)-1,2-bis(oxidanyl)-2-oxidanylidene-ethyl]amino]butanoic acid(Non-covalent)

E79.2: 13 residues within 4Å: Chain A: Y.116, Y.121, T.147, G.148, F.150, D.154, Y.155, F.157, K.213, F.259, R.330 Ligands: FE2.1, FMT.3 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.121, A:F.150 Hydrogen bonds: A:Y.116, A:Y.116, A:Y.121, A:G.148, A:Y.155, A:R.330 Water bridges: A:K.213 Salt bridges: A:K.213, A:R.330 E79.5: 13 residues within 4Å: Chain B: Y.116, Y.121, T.147, G.148, F.150, D.154, Y.155, F.157, K.213, F.259, R.330 Ligands: FE2.4, FMT.6 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:Y.121, B:F.150 Hydrogen bonds: B:Y.116, B:Y.116, B:Y.121, B:G.148, B:Y.155, B:R.330 Water bridges: B:K.213 Salt bridges: B:K.213, B:R.330

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

FMT.3: 7 residues within 4Å: Chain A: F.130, T.147, G.148, H.152, R.330 Ligands: FE2.1, E79.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.147, A:T.147, A:R.330 FMT.6: 7 residues within 4Å: Chain B: F.130, T.147, G.148, H.152, R.330 Ligands: FE2.4, E79.5 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.147, B:T.147, B:R.330

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, T.Y. et al., Pathway from N-Alkylglycine to Alkylisonitrile Catalyzed by Iron(II) and 2-Oxoglutarate-Dependent Oxygenases. Angew.Chem.Int.Ed.Engl. (2020)

Release Date

2020-03-04

Peptides

ScoE protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ScoE protein

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