Magnesium in PDB 3iak: Crystal Structure of Human Phosphodiesterase 4D (PDE4D) with Papaverine.

Enzymatic activity of Crystal Structure of Human Phosphodiesterase 4D (PDE4D) with Papaverine.

All present enzymatic activity of Crystal Structure of Human Phosphodiesterase 4D (PDE4D) with Papaverine.:
3.1.4.17;

Protein crystallography data

The structure of Crystal Structure of Human Phosphodiesterase 4D (PDE4D) with Papaverine., PDB code: 3iak was solved by R.K.Y.Cheng, L.Crawley, J.Barker, M.Wood, B.Felicetti, M.Whittaker, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	41.75 / 2.80
*Space group*	P 4₁ 2 2
*Cell size a, b, c (Å), α, β, γ (°)*	83.502, 83.502, 148.144, 90.00, 90.00, 90.00
*R / R_free (%)*	23.9 / 29.1

Other elements in 3iak:

The structure of Crystal Structure of Human Phosphodiesterase 4D (PDE4D) with Papaverine. also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Human Phosphodiesterase 4D (PDE4D) with Papaverine. (pdb code 3iak). 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 Human Phosphodiesterase 4D (PDE4D) with Papaverine., PDB code: 3iak:

Magnesium binding site 1 out of 1 in 3iak

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Magnesium Binding Sites List in 3iak

Magnesium binding site 1 out of 1 in the Crystal Structure of Human Phosphodiesterase 4D (PDE4D) with Papaverine.

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 Human Phosphodiesterase 4D (PDE4D) with Papaverine. within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg414 b:96.8 occ:1.00	O	A:HOH7	1.7	49.6	1.0
	O	A:HOH5	2.0	50.6	1.0
	O	A:HOH9	2.2	50.0	1.0
	O	A:HOH8	2.4	84.0	1.0
	OD1	A:ASP201	2.5	49.2	1.0
	O	A:HOH6	2.6	58.6	1.0
	CG	A:ASP201	3.2	49.4	1.0
	OD2	A:ASP201	3.3	49.9	1.0
	O	A:HOH4	3.9	52.1	1.0
	ZN	A:ZN1	3.9	78.5	1.0
	OE2	A:GLU230	4.0	50.5	1.0
	O	A:HIS200	4.0	48.6	1.0
	OG1	A:THR271	4.1	54.4	1.0
	NE2	A:HIS233	4.2	44.0	1.0
	CD2	A:HIS233	4.4	45.1	1.0
	CD2	A:HIS200	4.4	49.2	1.0
	CB	A:ASP201	4.5	48.9	1.0
	CD2	A:HIS204	4.7	47.4	1.0
	CB	A:THR271	4.7	54.7	1.0
	NE2	A:HIS200	4.8	49.4	1.0
	O	A:THR271	4.8	55.0	1.0
	CA	A:ASP201	4.8	48.7	1.0
	CD2	A:HIS160	4.9	50.3	1.0
	C	A:HIS200	4.9	48.4	1.0
	OD1	A:ASP318	4.9	59.2	1.0
	CD	A:GLU230	4.9	49.9	1.0
	OD2	A:ASP318	5.0	60.0	1.0
	NE2	A:HIS204	5.0	46.6	1.0

Reference:

R.K.Y.Cheng, L.Crawley, J.Barker, M.Wood, B.Felicetti, M.Whittaker. Crystal Structure of Human Phosphodiesterase 4D (PDE4D) with Papaverine. To Be Published.

Page generated: Wed Aug 14 16:00:29 2024

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