Calcium in PDB 4bgb: Nucleotide-Bound Closed Form of A Putative Sugar Kinase MK0840 From Methanopyrus Kandleri

The structure of Nucleotide-Bound Closed Form of A Putative Sugar Kinase MK0840 From Methanopyrus Kandleri, PDB code: 4bgb was solved by M.Schacherl, U.Baumann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.147 / 1.34
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	54.790, 108.540, 117.350, 90.00, 90.00, 90.00
R / Rfree (%)	15.76 / 18.28

The structure of Nucleotide-Bound Closed Form of A Putative Sugar Kinase MK0840 From Methanopyrus Kandleri also contains other interesting chemical elements:

Magnesium	(Mg)	4 atoms
Potassium	(K)	5 atoms

The binding sites of Calcium atom in the Nucleotide-Bound Closed Form of A Putative Sugar Kinase MK0840 From Methanopyrus Kandleri (pdb code 4bgb). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Nucleotide-Bound Closed Form of A Putative Sugar Kinase MK0840 From Methanopyrus Kandleri, PDB code: 4bgb:

Calcium binding site 1 out of 1 in the Nucleotide-Bound Closed Form of A Putative Sugar Kinase MK0840 From Methanopyrus Kandleri


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Nucleotide-Bound Closed Form of A Putative Sugar Kinase MK0840 From Methanopyrus Kandleri within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1359 b:30.0 occ:1.00 O A:GLU323 2.5 19.3 0.6 O A:HOH2203 2.6 22.1 1.0 OE2 A:GLU326 2.6 19.8 1.0 O3 A:GOL1355 2.6 24.3 1.0 OE1 A:GLU326 2.6 16.5 1.0 O A:HOH2201 2.7 24.9 1.0 O A:GLU323 2.7 24.8 0.4 O2 A:GOL1355 2.7 24.9 1.0 O A:HOH2198 2.7 19.4 1.0 CD A:GLU326 3.0 17.1 1.0 C3 A:GOL1355 3.5 27.5 1.0 C A:GLU323 3.5 20.4 0.6 C A:GLU323 3.6 22.5 0.4 C2 A:GOL1355 3.6 24.4 1.0 O A:HOH2124 4.1 23.0 1.0 CA A:GLU323 4.2 22.6 0.4 C1 A:GOL1355 4.2 25.3 1.0 O A:HOH2177 4.3 32.8 1.0 CA A:GLU323 4.3 22.8 0.6 O1B A:ADP1352 4.4 31.7 0.5 O A:HOH2202 4.4 25.9 1.0 N A:GLU324 4.5 20.2 1.0 CG A:GLU326 4.5 15.9 1.0 O A:HOH2015 4.6 14.5 1.0 CA A:GLU324 4.6 18.4 1.0 O A:HOH2034 4.6 32.8 1.0 O3B A:ADP1352 4.7 29.3 0.5 OD2 A:ASP51 4.7 19.1 1.0 O1 A:GOL1355 4.8 26.3 1.0 O A:HOH2125 4.8 43.0 1.0 N A:LEU325 4.8 17.2 1.0 O A:GLY322 4.9 25.8 1.0 NH2 A:ARG66 4.9 24.4 1.0 O1A A:ADP1352 5.0 48.5 0.5

M.Schacherl, S.M.Waltersperger, U.Baumann. Structural Characterization of the Ribonuclease H-Like Type Askha Superfamily Kinase MK0840 From Methanopyrus Kandleri Acta Crystallogr.,Sect.D V. 69 2440 2013.
ISSN: ISSN 0907-4449
PubMed: 24311585
DOI: 10.1107/S0907444913022683