Structure of PDB 2gpy Chain B Binding Site BS01

Receptor Information

>2gpy Chain B (length=192) Species: 272558 (Halalkalibacterium halodurans C-125)

LKHYLEKQIPARDQYIEQMEREAHEQQVPIMDLLGMESLLHLLKMAAPAR
ILEIGTAIGYSAIRMAQALPEATIVSIERDERRYEEAHKHVKALGLESRI
ELLFGDALQLGEKLELYPLFDVLFIDAAKGQYRRFFDMYSPMVRPGGLIL
SDNVLFNQWLLEHPQYDTRIFPVGDGIAISIKREEGHHHHHH

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: 2gpy Chain B Residue 301

Receptor-Ligand Complex Structure

Structure summary

• PDB: 2gpy Crystal structure of putative O-methyltransferase from Bacillus halodurans
• Resolution: 1.9 Å
• Binding residue (original residue number in PDB): N160 D206
• Binding residue (residue number reindexed from 1): N153 D175
• Annotation score: 1

Enzymatic activity

• Catalytic site (original residue number in PDB): D133 K136 D159 N160
• Catalytic site (residue number reindexed from 1): D126 K129 D152 N153
• Enzyme Commision number: 2.1.1.-

Gene Ontology

Molecular Function

• GO:0000287 magnesium ion binding
• GO:0008168 methyltransferase activity
• GO:0008171 O-methyltransferase activity
• GO:0008757 S-adenosylmethionine-dependent methyltransferase activity
• GO:0016300 tRNA (uridine) methyltransferase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0008033 tRNA processing
• GO:0030488 tRNA methylation
• GO:0032259 methylation

External links

• PDB: RCSB:2gpy, PDBe:2gpy, PDBj:2gpy
• PDBsum: 2gpy
• UniProt: Q9KDE1