Structure of PDB 5cce Chain A Binding Site BS03

Receptor Information

>5cce Chain A (length=230) Species: 210 (Helicobacter pylori)

GQKIGILGAMREEITPILELFGVDFEEIPLGGNVFHKGVYHNKEIIVAYS
KIGKVHSTLTTTSMILAFGVQKVLFSGVAGSLVKDLKINDLLVATQLVQH
DVDLSAFDHPLGFIPESAIFIETSGSLNALAKKIANEQHIALKEGVIASG
DQFVHSKERKEFLVSEFKASAVEMEGASVAFVCQKFGVPCCVLRSISDNA
DEKAGMSFDEFLEKSAHTSAKFLKSMVDEL

Ligand information

• Ligand ID: D8U
• InChI: InChI=1S/p+1/i/hD
• InChIKey: GPRLSGONYQIRFK-DYCDLGHISA-N
• SMILES:
  ACDLabs 12.01
  CACTVS 3.370
  OpenEye OEToolkits 1.7.2: [2H+]
• Formula: D
• Name: deuterium(1+)
• PDB chain: 5cce Chain A Residue 303

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5cce Neutron structures of the Helicobacter pylori 5'-methylthioadenosine nucleosidase highlight proton sharing and protonation states.
• Resolution: 1.82 Å
• Binding residue (original residue number in PDB): G80 D198
• Binding residue (residue number reindexed from 1): G80 D198
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 3.2.2.30: aminodeoxyfutalosine nucleosidase.
  3.2.2.9: adenosylhomocysteine nucleosidase.

Gene Ontology

Molecular Function

• GO:0008782 adenosylhomocysteine nucleosidase activity
• GO:0008930 methylthioadenosine nucleosidase activity
• GO:0016787 hydrolase activity
• GO:0102246 6-amino-6-deoxyfutalosine hydrolase activity

Biological Process

• GO:0009086 methionine biosynthetic process
• GO:0009234 menaquinone biosynthetic process
• GO:0019284 L-methionine salvage from S-adenosylmethionine
• GO:0019509 L-methionine salvage from methylthioadenosine

Cellular Component

• GO:0005829 cytosol

External links

• PDB: RCSB:5cce, PDBe:5cce, PDBj:5cce
• PDBsum: 5cce
• PubMed: 27856757
• UniProt: Q9ZMY2|MQMTN_HELPJ Aminodeoxyfutalosine nucleosidase (Gene Name=mtnN)