Potassium in PDB 1y8p: 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: 1y8p 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 / 2.63
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	120.904, 120.904, 240.085, 90.00, 90.00, 120.00
R / Rfree (%)	20.4 / 23

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 1y8p). 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: 1y8p:
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:0.9 occ:1.00 O A:PHE372 2.5 57.1 1.0 O A:SER20 2.6 61.9 1.0 O A:PHE22 2.8 63.5 1.0 OD1 A:ASN59 3.0 64.5 1.0 C A:PHE372 3.6 57.9 1.0 C A:ARG21 3.6 60.0 1.0 C A:PHE22 3.7 62.6 1.0 O A:ARG21 3.7 58.6 1.0 C A:SER20 3.7 61.2 1.0 CG1 A:VAL371 3.8 56.6 1.0 CG A:ASN59 3.8 64.9 1.0 CA A:ARG21 3.8 61.1 1.0 ND2 A:ASN59 3.9 66.7 1.0 N A:PHE372 3.9 57.8 1.0 N A:PHE22 4.1 60.4 1.0 N A:ARG21 4.2 61.2 1.0 CA A:PHE372 4.2 58.0 1.0 N A:SER23 4.3 63.8 1.0 CA A:SER23 4.4 65.2 1.0 CB A:PHE372 4.5 58.5 1.0 CA A:PHE22 4.5 61.5 1.0 N A:ASN373 4.7 57.9 1.0 C A:VAL371 4.7 59.8 1.0 CD A:PRO24 4.7 66.7 1.0 OG A:SER23 4.8 68.3 1.0 CD2 A:PHE372 4.9 60.6 1.0 CA A:SER20 4.9 61.6 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:99.0 occ:1.00 O A:LEU300 2.6 57.3 1.0 O1A A:ATP504 2.8 47.9 1.0 O A:GLY325 2.9 64.3 1.0 O A:ASN302 3.0 58.1 1.0 O A:TYR305 3.1 61.5 1.0 C A:GLY325 3.5 65.1 1.0 C5' A:ATP504 3.5 43.5 1.0 CA A:GLY325 3.7 67.4 1.0 CD A:PRO329 3.8 56.1 1.0 C A:LEU300 3.8 57.6 1.0 PA A:ATP504 3.9 47.2 1.0 O5' A:ATP504 3.9 38.7 1.0 N A:TYR305 4.0 62.8 1.0 C A:TYR305 4.1 62.9 1.0 C A:ASN302 4.1 57.6 1.0 O3A A:ATP504 4.1 48.9 1.0 CB A:TYR305 4.3 62.6 1.0 CA A:TYR305 4.3 62.7 1.0 N A:ASN302 4.4 57.0 1.0 CG A:PRO329 4.4 57.6 1.0 CB A:LEU328 4.5 55.6 1.0 C A:PHE301 4.5 57.3 1.0 N A:MET304 4.5 60.9 1.0 N A:TYR326 4.6 63.2 1.0 CA A:PHE301 4.6 56.5 1.0 N A:PHE301 4.6 57.0 1.0 CA A:LEU300 4.8 57.5 1.0 O A:ARG299 4.8 58.3 1.0 C4' A:ATP504 4.8 48.8 1.0 CD2 A:TYR305 4.9 61.3 1.0 CA A:ASN302 4.9 57.7 1.0 N A:LEU328 4.9 57.0 1.0 C A:MET304 5.0 62.9 1.0 N A:TYR303 5.0 57.7 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