Potassium in PDB 1iwp: Glycerol Dehydratase-Cyanocobalamin Complex of Klebsiella Pneumoniae

All present enzymatic activity of Glycerol Dehydratase-Cyanocobalamin Complex of Klebsiella Pneumoniae:
4.2.1.30;

The structure of Glycerol Dehydratase-Cyanocobalamin Complex of Klebsiella Pneumoniae, PDB code: 1iwp was solved by M.Yamanishi, M.Yunoki, T.Tobimatsu, T.Toraya, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.00 / 2.10
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	81.380, 108.223, 113.141, 90.00, 96.75, 90.00
R / Rfree (%)	20.9 / 24.7

The structure of Glycerol Dehydratase-Cyanocobalamin Complex of Klebsiella Pneumoniae also contains other interesting chemical elements:

Cobalt

(Co)

2 atoms

The binding sites of Potassium atom in the Glycerol Dehydratase-Cyanocobalamin Complex of Klebsiella Pneumoniae (pdb code 1iwp). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Glycerol Dehydratase-Cyanocobalamin Complex of Klebsiella Pneumoniae, PDB code: 1iwp:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Glycerol Dehydratase-Cyanocobalamin Complex of Klebsiella Pneumoniae


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Glycerol Dehydratase-Cyanocobalamin Complex of Klebsiella Pneumoniae within 5.0Å range: probe atom residue distance (Å) B Occ A:K1603 b:14.3 occ:1.00 O A:SER363 2.2 15.9 1.0 OE1 A:GLU222 2.3 19.4 1.0 OE1 A:GLU171 2.3 14.2 1.0 OE1 A:GLN297 2.3 12.9 1.0 O1 A:PGO1602 2.4 17.2 1.0 OE1 A:GLN142 2.5 20.7 1.0 O2 A:PGO1602 2.7 17.6 1.0 CD A:GLN297 3.3 12.8 1.0 CD A:GLU222 3.3 18.5 1.0 CD A:GLU171 3.3 16.5 1.0 C A:SER363 3.4 15.9 1.0 C1 A:PGO1602 3.5 20.6 1.0 C2 A:PGO1602 3.5 20.5 1.0 NE2 A:GLN297 3.5 14.4 1.0 CD A:GLN142 3.6 23.7 1.0 OE2 A:GLU171 3.6 15.8 1.0 OE2 A:GLU222 3.7 19.1 1.0 O A:HOH1840 3.7 70.3 1.0 NE2 A:GLN142 4.0 19.9 1.0 OD2 A:ASP336 4.0 13.1 1.0 OG A:SER363 4.1 18.7 1.0 CB A:SER363 4.1 15.9 1.0 NE2 A:HIS144 4.2 16.1 1.0 CA A:SER363 4.2 17.2 1.0 NE2 A:GLN201 4.3 14.9 1.0 N A:GLY364 4.3 17.2 1.0 CA A:GLY364 4.4 15.1 1.0 CG A:GLU222 4.5 17.4 1.0 CG A:GLU171 4.6 16.6 1.0 CD2 A:HIS144 4.6 16.6 1.0 CG A:GLN297 4.6 13.4 1.0 CB A:GLU171 4.7 15.6 1.0 CG A:GLN142 4.9 21.4 1.0 C3 A:PGO1602 4.9 18.9 1.0 CG A:ASP336 4.9 15.7 1.0

Potassium binding site 2 out of 2 in the Glycerol Dehydratase-Cyanocobalamin Complex of Klebsiella Pneumoniae


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Glycerol Dehydratase-Cyanocobalamin Complex of Klebsiella Pneumoniae within 5.0Å range: probe atom residue distance (Å) B Occ L:K2603 b:19.2 occ:1.00 O L:SER363 2.3 18.0 1.0 OE1 L:GLU171 2.3 19.8 1.0 OE1 L:GLN297 2.4 16.0 1.0 OE1 L:GLN142 2.4 20.6 1.0 OE1 L:GLU222 2.4 17.6 1.0 O1 L:PGO2602 2.5 16.9 1.0 O2 L:PGO2602 2.5 11.3 1.0 CD L:GLU171 3.3 16.0 1.0 CD L:GLN297 3.3 15.0 1.0 C L:SER363 3.3 15.1 1.0 C2 L:PGO2602 3.4 13.2 1.0 CD L:GLU222 3.4 16.6 1.0 C1 L:PGO2602 3.5 12.2 1.0 CD L:GLN142 3.5 21.3 1.0 NE2 L:GLN297 3.6 16.9 1.0 OE2 L:GLU171 3.6 19.8 1.0 OE2 L:GLU222 3.8 16.6 1.0 NE2 L:GLN142 4.0 21.6 1.0 OG L:SER363 4.0 18.3 1.0 NE2 L:HIS144 4.0 20.6 1.0 CB L:SER363 4.0 13.7 1.0 OD2 L:ASP336 4.1 16.6 1.0 NE2 L:GLN201 4.1 20.0 1.0 CA L:SER363 4.2 16.3 1.0 N L:GLY364 4.2 17.0 1.0 CA L:GLY364 4.3 17.5 1.0 CD2 L:HIS144 4.5 21.2 1.0 CG L:GLU171 4.6 17.4 1.0 CB L:GLU171 4.7 16.1 1.0 CG L:GLN297 4.7 14.0 1.0 CG L:GLU222 4.7 16.3 1.0 C3 L:PGO2602 4.7 14.1 1.0 CG L:GLN142 4.8 19.5 1.0 CG L:ASP336 5.0 11.9 1.0 CB L:ASP336 5.0 13.7 1.0

M.Yamanishi, M.Yunoki, T.Tobimatsu, H.Sato, J.Matsui, A.Dokiya, Y.Iuchi, K.Oe, K.Suto, N.Shibata, Y.Morimoto, N.Yasuoka, T.Toraya. The Crystal Structure of Coenzyme B12-Dependent Glycerol Dehydratase in Complex with Cobalamin and Propane-1,2-Diol. Eur.J.Biochem. V. 269 4484 2002.
ISSN: ISSN 0014-2956
PubMed: 12230560
DOI: 10.1046/J.1432-1033.2002.03151.X