Magnesium in PDB 8jvf: Crystal Structure of Dephospho-Coenzyme A Kinase

All present enzymatic activity of Crystal Structure of Dephospho-Coenzyme A Kinase:
2.7.1.237;

The structure of Crystal Structure of Dephospho-Coenzyme A Kinase, PDB code: 8jvf was solved by A.Kita, Y.Ishida, T.Shimosaka, Y.Michimori, K.Makarova, E.Koonin, H.Atomi, K.Miki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.01 / 2.40
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	55.101, 55.101, 122.584, 90, 90, 90
R / Rfree (%)	21.9 / 25.8

The binding sites of Magnesium atom in the Crystal Structure of Dephospho-Coenzyme A Kinase (pdb code 8jvf). 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 Crystal Structure of Dephospho-Coenzyme A Kinase, PDB code: 8jvf:

Magnesium binding site 1 out of 1 in the Crystal Structure of Dephospho-Coenzyme A Kinase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Dephospho-Coenzyme A Kinase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg201 b:65.9 occ:1.00 O3G A:GTP202 2.0 68.6 1.0 O2A A:GTP202 2.0 49.0 1.0 O A:HOH308 2.3 55.4 1.0 O A:HOH301 2.5 64.1 1.0 O2B A:GTP202 2.6 46.8 1.0 PG A:GTP202 3.2 85.3 1.0 PA A:GTP202 3.4 43.8 1.0 O3B A:GTP202 3.4 61.2 1.0 PB A:GTP202 3.5 53.4 1.0 OE1 A:GLU124 3.5 90.9 1.0 O A:HOH303 3.6 44.7 1.0 O A:HOH319 3.7 64.9 1.0 O3A A:GTP202 3.7 46.7 1.0 OE2 A:GLU124 3.9 76.8 1.0 CD A:GLU124 4.0 82.5 1.0 O2G A:GTP202 4.0 85.8 1.0 C5' A:GTP202 4.3 45.6 1.0 CA A:GLY47 4.3 33.3 1.0 O5' A:GTP202 4.3 47.3 1.0 O A:HOH315 4.4 69.3 1.0 O1A A:GTP202 4.4 42.9 1.0 O1G A:GTP202 4.4 77.1 1.0 OD2 A:ASP67 4.9 67.9 1.0 O1B A:GTP202 4.9 50.3 1.0

A.Kita, Y.Ishida, T.Shimosaka, Y.Michimori, K.Makarova, E.Koonin, H.Atomi, K.Miki. Crystal Structure of Gtp-Dependent Dephospho-Coenzyme A Kinase From the Hyperthermophilic Archaeon, Thermococcus Kodakarensis. Proteins V. 92 768 2024.
ISSN: ESSN 1097-0134
PubMed: 38235908
DOI: 10.1002/PROT.26666