Structure of PDB 5ze6 Chain B Binding Site BS03

Receptor Information

>5ze6 Chain B (length=313) Species: 83333 (Escherichia coli K-12)

MNLEKINELTAQDMAGVNAAILEQLNSDVQLINQLGYYIVSGGGKRIRPM
IAVLAARAVGYEGNAHVTIAALIEFIHTATLLHDDVVDESDMRRGKATAN
AAFGNAASVLVGDFIYTRAFQMMTSLGSLKVLEVMSEAVNVIAEGEVLQL
MNVNDPDITEENYMRVIYSKTARLFEAAAQCSGILAGCTPEEEKGLQDYG
RYLGTAFQLIDDLLDYKNVGDDLNEGKPTLPLLHAMHHGTPEQAQMIRTA
IEQGNGRHLLEPVLEAMNACGSLEWTRQRAEEEADKAIAALQVLPDTPWR
EALIGLAHIAVQR

Ligand information

• Ligand ID: MG
• InChI: InChI=1S/Mg/q+2
• InChIKey: JLVVSXFLKOJNIY-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mg+2]
  CACTVS 3.341: [Mg++]
• Formula: Mg
• Name: MAGNESIUM ION
• DrugBank: DB01378
• PDB chain: 5ze6 Chain B Residue 403

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5ze6 Discovery of Lipophilic Bisphosphonates That Target Bacterial Cell Wall and Quinone Biosynthesis.
• Resolution: 2.5 Å
• Binding residue (original residue number in PDB): D84 D88
• Binding residue (residue number reindexed from 1): D84 D88
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 2.5.1.90: all-trans-octaprenyl-diphosphate synthase.

Gene Ontology

Molecular Function

• GO:0004659 prenyltransferase activity
• GO:0005515 protein binding
• GO:0016740 transferase activity
• GO:0042802 identical protein binding
• GO:0042803 protein homodimerization activity
• GO:0046872 metal ion binding
• GO:0106350 octaprenyl pyrophosphate synthase activity

Biological Process

• GO:0006744 ubiquinone biosynthetic process
• GO:0008299 isoprenoid biosynthetic process
• GO:0016094 polyprenol biosynthetic process

Cellular Component

• GO:0005829 cytosol

External links

• PDB: RCSB:5ze6, PDBe:5ze6, PDBj:5ze6
• PDBsum: 5ze6
• PubMed: 30730737
• UniProt: P0AD57|ISPB_ECOLI Octaprenyl diphosphate synthase (Gene Name=ispB)