› 5kb3

X-ray diffraction
1.4Å resolution

1.4 A resolution structure of Helicobacter Pylori MTAN in complexed with p-ClPh-DADMe-ImmA

Released:
DOI: 10.2210/pdb5kb3/pdb
PDB 5kb3 coloured by chain and viewed from the front.
PDB 5kb3 coloured by chain and viewed from the side.
PDB 5kb3 coloured by chain and viewed from the top.
Source organism: Helicobacter pylori J99
Primary publication:
Neutron structures of the Helicobacter pylori 5'-methylthioadenosine nucleosidase highlight proton sharing and protonation states.
Banco MT, Mishra V, Ostermann A, Schrader TE, Evans GB, Kovalevsky A, Ronning DR
Proc. Natl. Acad. Sci. U.S.A. 113 13756-13761 (2016)
PMID: 27856757

Function and Biology Details

Reactions catalysed: 
6-amino-6-deoxyfutalosine + H(2)O = dehypoxanthine futalosine + adenine
5'-deoxyadenosine + H(2)O = 5-deoxy-D-ribose + adenine
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Aminodeoxyfutalosine nucleosidase Chain: A
Molecule details ›
Chain: A
Length: 230 amino acids
Theoretical weight: 24.98 KDa
Source organism: Helicobacter pylori J99
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9ZMY2 (Residues: 2-230; Coverage: 100%)
Gene names: jhp_0082, mtn, mtnN
Sequence domains: Phosphorylase superfamily
Structure domains: Nucleoside phosphorylase domain

Ligands and Environments

2 bound ligands:
Ligand 4CT 1 x 4CT
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-F
Spacegroup: P3221
Unit cell:
a: 81.207Å b: 81.207Å c: 67.254Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.14 0.139 0.17
Expression system: Escherichia coli

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Citations

5 review citations

Low barrier hydrogen bonds in protein structure and function.
Kemp et al. (2021)
4 more

1 mention without citation

Neutron structures of the Helicobacter pylori 5'-methylthioadenosine nucleosidase highlight proton sharing and protonation states.
Banco et al. (2016)