Magnesium in PDB 7ooz: Purine Nucleoside Phosphorylase(Deod-Type) From H. Pylori with 6- Benzyloxo-2-Chloropurine

Enzymatic activity of Purine Nucleoside Phosphorylase(Deod-Type) From H. Pylori with 6- Benzyloxo-2-Chloropurine

All present enzymatic activity of Purine Nucleoside Phosphorylase(Deod-Type) From H. Pylori with 6- Benzyloxo-2-Chloropurine:
2.4.2.1;

Protein crystallography data

The structure of Purine Nucleoside Phosphorylase(Deod-Type) From H. Pylori with 6- Benzyloxo-2-Chloropurine, PDB code: 7ooz was solved by M.Narczyk, Z.Stefanic, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	40.21 / 1.70
*Space group*	P 2₁ 3
*Cell size a, b, c (Å), α, β, γ (°)*	113.736, 113.736, 113.736, 90, 90, 90
*R / R_free (%)*	16.1 / 18.8

Other elements in 7ooz:

The structure of Purine Nucleoside Phosphorylase(Deod-Type) From H. Pylori with 6- Benzyloxo-2-Chloropurine also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Purine Nucleoside Phosphorylase(Deod-Type) From H. Pylori with 6- Benzyloxo-2-Chloropurine (pdb code 7ooz). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Purine Nucleoside Phosphorylase(Deod-Type) From H. Pylori with 6- Benzyloxo-2-Chloropurine, PDB code: 7ooz:

Magnesium binding site 1 out of 1 in 7ooz

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Magnesium Binding Sites List in 7ooz

Magnesium binding site 1 out of 1 in the Purine Nucleoside Phosphorylase(Deod-Type) From H. Pylori with 6- Benzyloxo-2-Chloropurine

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Purine Nucleoside Phosphorylase(Deod-Type) From H. Pylori with 6- Benzyloxo-2-Chloropurine within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg309 b:38.2 occ:1.00	O	A:HOH506	2.5	30.1	1.0
	O	A:HOH429	3.0	27.7	1.0
	O	A:HOH411	3.2	24.7	1.0
	O	A:HOH424	3.5	37.6	1.0
	N	A:THR90	3.6	26.2	1.0
	OG1	A:THR90	3.7	34.9	1.0
	O2	A:GOL308	3.7	48.2	1.0
	NH2	B:ARG43	3.8	24.1	1.0
	CA	A:GLY89	3.9	23.1	1.0
	SG	A:CYS19	4.2	29.1	0.4
	C	A:GLY89	4.2	26.5	1.0
	CB	A:THR90	4.5	31.6	1.0
	CG2	A:THR90	4.5	31.9	1.0
	CA	A:THR90	4.6	26.0	1.0
	CZ	B:ARG43	4.7	20.9	1.0
	NH1	B:ARG43	4.7	18.8	1.0
	NH2	A:ARG24	4.7	47.9	1.0
	O	A:HOH448	4.8	39.5	1.0
	CE2	A:PHE221	4.8	33.9	1.0
	N	A:GLY20	4.8	19.5	1.0
	O	A:THR90	4.9	26.9	1.0
	N	A:ASP21	5.0	20.4	1.0

Reference:

M.Narczyk, M.I.Wojtys, I.Lescic Asler, B.Zinic, M.Luic, E.K.Jagusztyn-Krynicka, Z.Stefanic, A.Bzowska. Interactions of 2,6-Substituted Purines with Purine Nucleoside Phosphorylase From Helicobacter Pylori in Solution and in the Crystal, and the Effects of These Compounds on Cell Cultures of This Bacterium. J Enzyme Inhib Med Chem V. 37 1083 2022.
ISSN: ESSN 1475-6374
PubMed: 35437103
DOI: 10.1080/14756366.2022.2061965

Page generated: Thu Oct 3 03:27:42 2024

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