SMTL ID : 5zdm.1

The ligand-free structure of FomD

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.38 Å

Oligo State

monomer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: N.113, D.129, D.133 Ligands: CA.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.129, A:D.133, H2O.2, H2O.3 CA.2: 5 residues within 4Å: Chain A: E.131, D.133, K.146, D.147 Ligands: CA.1 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.131, A:D.133, A:D.133, A:D.147, H2O.2

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 9 residues within 4Å: Chain A: R.24, D.26, I.34, Y.36, H.70, W.72, W.97, N.113, D.129 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:D.26, A:Y.36, A:Y.36, A:N.113, A:D.129, A:D.129 Water bridges: A:R.24, A:R.24, A:R.24 GOL.4: 4 residues within 4Å: Chain A: S.140, R.141, F.143, I.179 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.140, A:I.179 GOL.5: 4 residues within 4Å: Chain A: R.108, E.109, Y.111, R.144 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.109, A:R.144

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sato, S. et al., Biochemical and Structural Analysis of FomD That Catalyzes the Hydrolysis of Cytidylyl ( S)-2-Hydroxypropylphosphonate in Fosfomycin Biosynthesis. Biochemistry (2018)

Release Date

2018-07-25

Peptides

FomD: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

FomD

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