Yttrium in PDB 3h1w: Crystal Structure of Mannose 6-Phosphate Isomerase Bound with Zinc and Yttrium

Enzymatic activity of Crystal Structure of Mannose 6-Phosphate Isomerase Bound with Zinc and Yttrium

All present enzymatic activity of Crystal Structure of Mannose 6-Phosphate Isomerase Bound with Zinc and Yttrium:
5.3.1.8;

Protein crystallography data

The structure of Crystal Structure of Mannose 6-Phosphate Isomerase Bound with Zinc and Yttrium, PDB code: 3h1w was solved by S.R.Sagurthi, G.Giri, H.S.Savithri, M.R.N.Murthy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	28.95 / 1.94
*Space group*	P 2₁ 2₁ 2₁
*Cell size a, b, c (Å), α, β, γ (°)*	35.980, 92.360, 111.490, 90.00, 90.00, 90.00
*R / R_free (%)*	18.2 / 23.6

Other elements in 3h1w:

The structure of Crystal Structure of Mannose 6-Phosphate Isomerase Bound with Zinc and Yttrium also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

Yttrium Binding Sites:

The binding sites of Yttrium atom in the Crystal Structure of Mannose 6-Phosphate Isomerase Bound with Zinc and Yttrium (pdb code 3h1w). This binding sites where shown within 5.0 Angstroms radius around Yttrium atom.
In total only one binding site of Yttrium was determined in the Crystal Structure of Mannose 6-Phosphate Isomerase Bound with Zinc and Yttrium, PDB code: 3h1w:

Yttrium binding site 1 out of 1 in 3h1w

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Yttrium Binding Sites List in 3h1w

Yttrium binding site 1 out of 1 in the Crystal Structure of Mannose 6-Phosphate Isomerase Bound with Zinc and Yttrium

Mono view

Stereo pair view

A full contact list of Yttrium with other atoms in the Y binding site number 1 of Crystal Structure of Mannose 6-Phosphate Isomerase Bound with Zinc and Yttrium within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Y398 b:18.2 occ:0.50	O	A:HOH598	2.2	28.0	1.0
	O	A:HOH582	2.3	37.4	1.0
	OE1	A:GLU134	2.4	25.0	1.0
	O	A:HOH625	2.4	33.7	1.0
	O	A:HOH597	2.4	30.0	1.0
	OE2	A:GLU264	2.5	26.0	1.0
	OE1	A:GLU264	3.1	24.5	1.0
	CD	A:GLU264	3.1	22.2	1.0
	CD	A:GLU134	3.3	25.1	1.0
	ZN	A:ZN397	3.7	19.4	0.5
	OE2	A:GLU134	3.8	26.1	1.0
	O	A:HOH629	4.2	35.6	1.0
	CE2	A:TYR257	4.4	14.0	1.0
	OH	A:TYR257	4.4	19.9	1.0
	OD1	A:ASP270	4.4	28.9	1.0
	CG	A:GLU134	4.4	20.5	1.0
	OE1	A:GLN97	4.5	14.4	1.0
	CG	A:GLU264	4.6	17.0	1.0
	O	A:HOH626	4.6	31.3	1.0
	SD	A:MET266	4.7	26.3	1.0
	CZ	A:TYR257	4.8	14.1	1.0
	NE2	A:HIS99	4.8	20.1	1.0
	O	A:HOH628	4.9	37.8	1.0
	O	A:HOH599	5.0	26.7	1.0
	CE1	A:HIS99	5.0	19.8	1.0

Reference:

S.R.Sagurthi, G.Giri, H.S.Savithri, M.R.N.Murthy. Crystal Structure of Mannose 6-Phosphate Isomerase Fromsalmonella Typhimurium Bound to Metal Atoms and Substrate: Implications For Catalytic Mechanism To Be Published.

Page generated: Sat Oct 12 20:33:04 2024

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