Magnesium in PDB 2vjk: Formyl-Coa Transferase with Aspartyl-Coa Thioester Intermediate Derived From Oxalyl-Coa

Enzymatic activity of Formyl-Coa Transferase with Aspartyl-Coa Thioester Intermediate Derived From Oxalyl-Coa

All present enzymatic activity of Formyl-Coa Transferase with Aspartyl-Coa Thioester Intermediate Derived From Oxalyl-Coa:
2.8.3.16;

Protein crystallography data

The structure of Formyl-Coa Transferase with Aspartyl-Coa Thioester Intermediate Derived From Oxalyl-Coa, PDB code: 2vjk was solved by C.L.Berthold, C.G.Toyota, N.G.J.Richards, Y.Lindqvist, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	30.00 / 1.97
*Space group*	I 4
*Cell size a, b, c (Å), α, β, γ (°)*	151.906, 151.906, 99.504, 90.00, 90.00, 90.00
*R / R_free (%)*	17.3 / 21.4

Other elements in 2vjk:

The structure of Formyl-Coa Transferase with Aspartyl-Coa Thioester Intermediate Derived From Oxalyl-Coa also contains other interesting chemical elements:

Chlorine

(Cl)

3 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Formyl-Coa Transferase with Aspartyl-Coa Thioester Intermediate Derived From Oxalyl-Coa (pdb code 2vjk). 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 Formyl-Coa Transferase with Aspartyl-Coa Thioester Intermediate Derived From Oxalyl-Coa, PDB code: 2vjk:

Magnesium binding site 1 out of 1 in 2vjk

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Magnesium Binding Sites List in 2vjk

Magnesium binding site 1 out of 1 in the Formyl-Coa Transferase with Aspartyl-Coa Thioester Intermediate Derived From Oxalyl-Coa

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Formyl-Coa Transferase with Aspartyl-Coa Thioester Intermediate Derived From Oxalyl-Coa within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg1431 b:42.4 occ:1.00	O	A:HOH2293	2.0	52.9	1.0
	OD1	A:ASP297	2.2	36.2	1.0
	O	A:HOH2291	2.3	31.6	1.0
	O	A:HOH2295	2.3	39.1	1.0
	O	A:ASP294	2.3	21.8	1.0
	C	A:ASP294	3.3	21.0	1.0
	CG	A:ASP297	3.4	32.2	1.0
	OD2	A:ASP297	4.0	38.0	1.0
	CA	A:ASP294	4.1	22.1	1.0
	OH	A:TYR343	4.1	20.7	1.0
	N	A:MET295	4.3	20.9	1.0
	N	A:ASP297	4.5	24.4	1.0
	CA	A:ASP297	4.5	25.7	1.0
	CB	A:ASP294	4.5	23.2	1.0
	CB	A:ASP297	4.6	28.4	1.0
	O	A:MET295	4.6	19.1	1.0
	CA	A:MET295	4.6	20.7	1.0
	C	A:MET295	4.6	20.9	1.0

Reference:

C.L.Berthold, C.G.Toyota, N.G.J.Richards, Y.Lindqvist. Reinvestigation of the Catalytic Mechanism of Formyl-Coa Transferase, A Class III Coa- Transferase. J.Biol.Chem. V. 283 6519 2008.
ISSN: ISSN 0021-9258
PubMed: 18162462
DOI: 10.1074/JBC.M709353200

Page generated: Mon Dec 14 07:42:10 2020

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