Magnesium in PDB 3ukd: Ump/Cmp Kinase From Slime Mold Complexed with Adp, Cmp, and ALF3

All present enzymatic activity of Ump/Cmp Kinase From Slime Mold Complexed with Adp, Cmp, and ALF3:
2.7.4.14;

The structure of Ump/Cmp Kinase From Slime Mold Complexed with Adp, Cmp, and ALF3, PDB code: 3ukd was solved by I.Schlichting, J.Reinstein, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	9.90 / 1.90
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	78.800, 78.800, 100.700, 90.00, 90.00, 90.00
R / Rfree (%)	19.8 / 23.2

The structure of Ump/Cmp Kinase From Slime Mold Complexed with Adp, Cmp, and ALF3 also contains other interesting chemical elements:

Fluorine	(F)	3 atoms
Aluminium	(Al)	1 atom

The binding sites of Magnesium atom in the Ump/Cmp Kinase From Slime Mold Complexed with Adp, Cmp, and ALF3 (pdb code 3ukd). 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 Ump/Cmp Kinase From Slime Mold Complexed with Adp, Cmp, and ALF3, PDB code: 3ukd:

Magnesium binding site 1 out of 1 in the Ump/Cmp Kinase From Slime Mold Complexed with Adp, Cmp, and ALF3


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Ump/Cmp Kinase From Slime Mold Complexed with Adp, Cmp, and ALF3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg500 b:19.8 occ:1.00 O A:HOH220 2.0 21.8 1.0 F3 A:AF3501 2.1 25.6 1.0 O2B A:ADP195 2.2 17.1 1.0 O A:HOH227 2.3 18.9 1.0 O A:HOH215 2.3 13.7 1.0 O A:HOH198 2.4 24.1 1.0 PB A:ADP195 3.3 17.0 1.0 O3B A:ADP195 3.5 14.8 1.0 AL A:AF3501 3.6 27.3 1.0 N A:GLY20 4.1 14.2 1.0 O2A A:ADP195 4.1 17.7 1.0 O A:HOH197 4.2 24.5 1.0 O3A A:ADP195 4.2 18.3 1.0 NH1 A:ARG137 4.2 23.8 1.0 O2P A:C5P196 4.2 18.1 1.0 CA A:GLY20 4.2 14.6 1.0 O1P A:C5P196 4.3 18.6 1.0 OD2 A:ASP89 4.4 16.1 1.0 O3P A:C5P196 4.4 17.6 1.0 O1B A:ADP195 4.5 18.0 1.0 F2 A:AF3501 4.5 28.9 1.0 P A:C5P196 4.5 18.8 1.0 NH1 A:ARG131 4.5 19.1 1.0 OD1 A:ASP89 4.5 18.2 1.0 OG A:SER36 4.6 16.9 1.0 PA A:ADP195 4.6 18.6 1.0 O A:HOH553 4.6 32.6 1.0 F1 A:AF3501 4.7 25.1 1.0 O A:HOH208 4.8 16.7 1.0 O1A A:ADP195 4.9 18.0 1.0 CG A:ASP89 4.9 17.2 1.0 NH2 A:ARG42 4.9 29.5 1.0

I.Schlichting, J.Reinstein. Structures of Active Conformations of Ump Kinase From Dictyostelium Discoideum Suggest Phosphoryl Transfer Is Associative. Biochemistry V. 36 9290 1997.
ISSN: ISSN 0006-2960
PubMed: 9280438
DOI: 10.1021/BI970974C