Magnesium in PDB 1y8o: Crystal Structure of the PDK3-L2 Complex

All present enzymatic activity of Crystal Structure of the PDK3-L2 Complex:
2.3.1.12; 2.7.1.99;

The structure of Crystal Structure of the PDK3-L2 Complex, PDB code: 1y8o was solved by M.Kato, J.L.Chuang, R.M.Wynn, D.T.Chuang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.48
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	120.752, 120.752, 239.153, 90.00, 90.00, 120.00
R / Rfree (%)	21 / 23.4

The structure of Crystal Structure of the PDK3-L2 Complex also contains other interesting chemical elements:

Potassium

(K)

2 atoms

The binding sites of Magnesium atom in the Crystal Structure of the PDK3-L2 Complex (pdb code 1y8o). 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 the PDK3-L2 Complex, PDB code: 1y8o:

Magnesium binding site 1 out of 1 in the Crystal Structure of the PDK3-L2 Complex


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 the PDK3-L2 Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:96.5 occ:1.00 O A:HOH560 2.2 63.7 1.0 O2A A:ADP504 2.5 82.7 1.0 O3B A:ADP504 2.5 81.6 1.0 OD1 A:ASN251 2.8 51.9 1.0 O A:HOH544 3.1 53.8 1.0 OE1 A:GLU247 3.2 71.1 1.0 CD A:LYS250 3.5 70.2 1.0 PB A:ADP504 3.6 84.6 1.0 CG A:ASN251 3.7 54.4 1.0 PA A:ADP504 3.7 83.7 1.0 O3A A:ADP504 3.9 85.7 1.0 ND2 A:ASN251 3.9 57.8 1.0 O2B A:ADP504 3.9 84.0 1.0 CD A:GLU247 4.1 68.9 1.0 CG A:GLU247 4.1 64.0 1.0 O A:GLU247 4.2 55.8 1.0 NH2 A:ARG254 4.3 73.1 1.0 CG A:LYS250 4.3 61.8 1.0 NH1 A:ARG254 4.4 76.2 1.0 O5' A:ADP504 4.5 80.2 1.0 NZ A:LYS250 4.6 73.1 1.0 CA A:GLY327 4.6 62.9 1.0 CE A:LYS250 4.6 71.0 1.0 CZ A:ARG254 4.8 75.1 1.0 N A:ASN251 4.9 55.9 1.0 CB A:ASN251 5.0 55.7 1.0 O1A A:ADP504 5.0 83.0 1.0 O1B A:ADP504 5.0 80.2 1.0 O A:LEU321 5.0 0.1 1.0

M.Kato, J.L.Chuang, S.C.Tso, R.M.Wynn, D.T.Chuang. Crystal Structure of Pyruvate Dehydrogenase Kinase 3 Bound to Lipoyl Domain 2 of Human Pyruvate Dehydrogenase Complex. Embo J. V. 24 1763 2005.
ISSN: ISSN 0261-4189
PubMed: 15861126
DOI: 10.1038/SJ.EMBOJ.7600663