SMTL ID : 6m9r.1

Crystal structure of SznF from Streptomyces achromogenes var. streptozoticus NRRL 2697 with a bound N(delta)-hydroxy-N(omega)-methyl-L-arginine intermediate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

homo-dimer

Ligands

2 x J9Y: (2S)-2-amino-5-{[(E)-amino(methylamino)methylidene](hydroxy)azaniumyl}pentanoate(Non-covalent)

J9Y.1: 11 residues within 4Å: Chain A: R.48, L.396, E.398, S.404, H.407, H.409, M.422, H.448, A.450, Y.459 Ligands: FE.2 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:E.398, A:Y.459 Water bridges: A:R.48, A:R.48, A:Q.50, A:Q.50, A:N.405 Salt bridges: A:R.48, A:H.407 J9Y.3: 10 residues within 4Å: Chain B: R.48, E.398, S.404, H.407, H.409, M.422, H.448, A.450, Y.459 Ligands: FE.4 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:E.398, B:S.404, B:Y.459, B:Y.459 Water bridges: B:R.48, B:Q.50, B:E.402, B:N.405, B:E.413 Salt bridges: B:R.48, B:H.407

2 x FE: FE (III) ION(Non-covalent)

FE.2: 4 residues within 4Å: Chain A: H.407, H.409, H.448 Ligands: J9Y.1 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.407, A:H.409, A:H.448 FE.4: 4 residues within 4Å: Chain B: H.407, H.409, H.448 Ligands: J9Y.3 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.407, B:H.409, B:H.448

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ng, T.L. et al., An N-nitrosating metalloenzyme constructs the pharmacophore of streptozotocin. Nature (2019)

Release Date

2019-02-06

Peptides

SznF: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

SznF