Magnesium in PDB 4e3v: Crystal Structure of Xylose Isomerase From Streptomyces Rubiginosus Cryoprotected in Proline

Enzymatic activity of Crystal Structure of Xylose Isomerase From Streptomyces Rubiginosus Cryoprotected in Proline

All present enzymatic activity of Crystal Structure of Xylose Isomerase From Streptomyces Rubiginosus Cryoprotected in Proline:
5.3.1.5;

Protein crystallography data

The structure of Crystal Structure of Xylose Isomerase From Streptomyces Rubiginosus Cryoprotected in Proline, PDB code: 4e3v was solved by J.J.Tanner, T.A.Pemberton, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	19.46 / 1.50
*Space group*	I 2 2 2
*Cell size a, b, c (Å), α, β, γ (°)*	92.493, 98.022, 102.425, 90.00, 90.00, 90.00
*R / R_free (%)*	16.4 / 17.9

Other elements in 4e3v:

The structure of Crystal Structure of Xylose Isomerase From Streptomyces Rubiginosus Cryoprotected in Proline also contains other interesting chemical elements:

Manganese

(Mn)

1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Xylose Isomerase From Streptomyces Rubiginosus Cryoprotected in Proline (pdb code 4e3v). 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 Crystal Structure of Xylose Isomerase From Streptomyces Rubiginosus Cryoprotected in Proline, PDB code: 4e3v:

Magnesium binding site 1 out of 1 in 4e3v

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Magnesium Binding Sites List in 4e3v

Magnesium binding site 1 out of 1 in the Crystal Structure of Xylose Isomerase From Streptomyces Rubiginosus Cryoprotected in Proline

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Xylose Isomerase From Streptomyces Rubiginosus Cryoprotected in Proline within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg404 b:8.0 occ:1.00	OD2	A:ASP287	2.5	19.5	1.0
	OD2	A:ASP245	2.5	16.1	1.0
	OE2	A:GLU181	2.5	34.4	1.0
	OE1	A:GLU217	2.6	16.9	1.0
	O	A:HOH808	2.8	30.6	1.0
	O	A:HOH810	2.9	34.5	1.0
	CD	A:GLU181	3.2	21.4	1.0
	OE1	A:GLU181	3.2	14.7	1.0
	CG	A:ASP287	3.4	10.7	1.0
	O	A:HOH772	3.5	21.6	1.0
	CG	A:ASP245	3.6	10.5	1.0
	CB	A:ASP287	3.7	7.7	1.0
	CD	A:GLU217	3.7	13.1	1.0
	O	A:HOH807	3.7	28.6	1.0
	O	A:HOH806	3.9	22.8	1.0
	CB	A:ASP245	4.0	5.2	1.0
	CE1	A:HIS220	4.2	11.4	1.0
	CB	A:GLU217	4.3	6.3	1.0
	CG	A:GLU217	4.3	9.9	1.0
	OD1	A:ASP287	4.4	9.9	1.0
	CG	A:GLU181	4.5	11.9	1.0
	OD1	A:ASP245	4.6	11.0	1.0
	NE2	A:HIS220	4.7	11.4	1.0
	OE2	A:GLU217	4.7	16.7	1.0
	ND2	A:ASN215	4.8	8.8	1.0
	ND1	A:HIS220	4.8	9.9	1.0
	MN	A:MN405	4.9	18.6	1.0

Reference:

T.A.Pemberton, B.R.Still, E.M.Christensen, H.Singh, D.Srivastava, J.J.Tanner. Proline: Mother Nature'S Cryoprotectant Applied to Protein Crystallography. Acta Crystallogr.,Sect.D V. 68 1010 2012.
ISSN: ISSN 0907-4449
PubMed: 22868767
DOI: 10.1107/S0907444912019580

Page generated: Fri Aug 16 13:34:03 2024

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