Potassium 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:

Magnesium

(Mg)

1 atom

The binding sites of Potassium atom in the Crystal Structure of the PDK3-L2 Complex (pdb code 1y8o). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Crystal Structure of the PDK3-L2 Complex, PDB code: 1y8o:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Crystal Structure of the PDK3-L2 Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of the PDK3-L2 Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:K502 b:89.0 occ:1.00 O A:LEU300 2.6 63.2 1.0 O1A A:ADP504 2.8 83.0 1.0 O A:GLY325 2.8 77.4 1.0 O A:SER306 3.3 99.3 1.0 O A:ASN302 3.3 74.3 1.0 C A:LEU300 3.6 63.1 1.0 C A:GLY325 3.7 77.1 1.0 C5' A:ADP504 3.7 79.2 1.0 CD A:PRO329 3.8 54.0 1.0 C A:SER306 3.8 99.0 1.0 PA A:ADP504 4.0 83.7 1.0 CA A:GLY325 4.1 79.3 1.0 CA A:SER306 4.2 98.3 1.0 CA A:LEU300 4.2 62.9 1.0 O3A A:ADP504 4.3 85.7 1.0 CG A:PRO329 4.3 55.8 1.0 O5' A:ADP504 4.3 80.2 1.0 O A:ARG299 4.4 63.5 1.0 C A:ASN302 4.5 72.9 1.0 N A:PHE301 4.5 63.5 1.0 CB A:LEU328 4.7 59.2 1.0 N A:ASN302 4.7 68.4 1.0 CA A:PHE301 4.7 64.4 1.0 N A:TYR326 4.8 74.8 1.0 C A:PHE301 4.8 66.2 1.0 N A:SER306 4.9 97.5 1.0

Potassium binding site 2 out of 2 in the Crystal Structure of the PDK3-L2 Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of the PDK3-L2 Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:K503 b:65.8 occ:1.00 O A:SER20 2.5 56.5 1.0 O A:PHE372 2.6 52.6 1.0 O A:PHE22 2.6 59.2 1.0 OD1 A:ASN59 2.7 60.0 1.0 CG A:ASN59 3.5 59.7 1.0 C A:SER20 3.6 57.0 1.0 C A:PHE22 3.6 60.2 1.0 C A:PHE372 3.6 53.3 1.0 C A:ARG21 3.7 57.4 1.0 ND2 A:ASN59 3.7 56.0 1.0 O A:ARG21 3.7 56.9 1.0 CG1 A:VAL371 3.8 54.6 1.0 N A:PHE372 3.8 54.1 1.0 CA A:ARG21 3.9 57.8 1.0 N A:PHE22 4.1 57.4 1.0 CA A:PHE372 4.1 53.4 1.0 N A:ARG21 4.2 57.2 1.0 CB A:PHE372 4.2 54.0 1.0 CA A:SER23 4.4 62.3 1.0 N A:SER23 4.4 61.3 1.0 CA A:PHE22 4.5 58.6 1.0 CD A:PRO24 4.6 63.9 1.0 CA A:SER20 4.7 56.5 1.0 C A:VAL371 4.7 56.6 1.0 CD2 A:PHE372 4.8 54.9 1.0 N A:ASN373 4.8 52.7 1.0 CA A:VAL371 4.9 57.2 1.0 CB A:ASN59 5.0 59.0 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