Magnesium in PDB 5kb3: 1.4 A Resolution Structure of Helicobacter Pylori Mtan in Complexed with P-Clph-Dadme-Imma

Enzymatic activity of 1.4 A Resolution Structure of Helicobacter Pylori Mtan in Complexed with P-Clph-Dadme-Imma

All present enzymatic activity of 1.4 A Resolution Structure of Helicobacter Pylori Mtan in Complexed with P-Clph-Dadme-Imma:
3.2.2.30; 3.2.2.9;

Protein crystallography data

The structure of 1.4 A Resolution Structure of Helicobacter Pylori Mtan in Complexed with P-Clph-Dadme-Imma, PDB code: 5kb3 was solved by M.T.Banco, D.R.Ronning, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	34.76 / 1.40
*Space group*	P 3₂ 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	81.207, 81.207, 67.254, 90.00, 90.00, 120.00
*R / R_free (%)*	13.9 / 17

Other elements in 5kb3:

The structure of 1.4 A Resolution Structure of Helicobacter Pylori Mtan in Complexed with P-Clph-Dadme-Imma also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the 1.4 A Resolution Structure of Helicobacter Pylori Mtan in Complexed with P-Clph-Dadme-Imma (pdb code 5kb3). 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 1.4 A Resolution Structure of Helicobacter Pylori Mtan in Complexed with P-Clph-Dadme-Imma, PDB code: 5kb3:

Magnesium binding site 1 out of 1 in 5kb3

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Magnesium Binding Sites List in 5kb3

Magnesium binding site 1 out of 1 in the 1.4 A Resolution Structure of Helicobacter Pylori Mtan in Complexed with P-Clph-Dadme-Imma

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of 1.4 A Resolution Structure of Helicobacter Pylori Mtan in Complexed with P-Clph-Dadme-Imma within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg302 b:47.0 occ:1.00	O	A:HOH618	2.0	32.2	1.0
	O	A:HOH425	2.0	23.4	1.0
	O	A:HOH569	2.2	25.3	1.0
	O	A:HOH517	2.2	34.6	1.0
	O	A:HOH576	2.3	49.3	1.0
	OE1	A:GLN184	2.3	26.7	1.0
	CD	A:GLN184	3.3	23.2	1.0
	NE2	A:GLN184	3.6	23.6	1.0
	O	A:GLN184	4.3	16.5	1.0
	O	A:HOH591	4.3	39.1	1.0
	O	A:HOH606	4.4	43.8	1.0
	O	A:HOH428	4.5	18.7	1.0
	CA	A:GLN184	4.5	14.0	1.0
	O	A:HOH603	4.6	44.1	1.0
	CG	A:GLN184	4.6	20.9	1.0
	CB	A:GLN184	4.8	17.0	1.0
	CA	A:GLY187	4.8	17.3	1.0
	C	A:GLN184	4.9	13.6	1.0

Reference:

M.T.Banco, V.Mishra, A.Ostermann, T.E.Schrader, G.B.Evans, A.Kovalevsky, D.R.Ronning. Neutron Structures of the Helicobacter Pylori 5'-Methylthioadenosine Nucleosidase Highlight Proton Sharing and Protonation States. Proc. Natl. Acad. Sci. V. 113 13756 2016U.S.A..
ISSN: ESSN 1091-6490
PubMed: 27856757
DOI: 10.1073/PNAS.1609718113

Page generated: Sun Sep 29 18:55:25 2024

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