Magnesium in PDB 6tzm: Crystal Structure of Fungal Rna Kinase

All present enzymatic activity of Crystal Structure of Fungal Rna Kinase:
6.5.1.3;

The structure of Crystal Structure of Fungal Rna Kinase, PDB code: 6tzm was solved by S.Shuman, Y.Goldgur, A.Banerjee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.79 / 1.71
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	50.562, 55.379, 81.419, 90.00, 90.00, 90.00
R / Rfree (%)	18.6 / 20.9

The binding sites of Magnesium atom in the Crystal Structure of Fungal Rna Kinase (pdb code 6tzm). 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 Fungal Rna Kinase, PDB code: 6tzm:

Magnesium binding site 1 out of 1 in the Crystal Structure of Fungal Rna 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 Fungal Rna Kinase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg902 b:29.1 occ:1.00 OG1 A:THR426 2.1 23.8 1.0 O A:HOH1041 2.1 31.7 1.0 O1B A:GDP901 2.2 21.8 1.0 O A:HOH1047 2.2 29.6 1.0 O A:HOH1119 2.2 32.8 1.0 O A:HOH1022 2.2 32.3 1.0 CB A:THR426 3.2 19.6 1.0 PB A:GDP901 3.3 25.6 1.0 O3B A:GDP901 3.5 20.0 1.0 O2A A:GDP901 4.0 24.7 1.0 N A:THR426 4.1 18.6 1.0 CG2 A:THR426 4.1 23.4 1.0 O A:HOH1032 4.1 29.9 1.0 CA A:THR426 4.2 19.0 1.0 OD1 A:ASP474 4.3 20.8 1.0 O2B A:GDP901 4.4 23.1 1.0 O A:HOH1082 4.4 49.3 1.0 OD2 A:ASP445 4.4 60.6 1.0 O3A A:GDP901 4.4 25.1 1.0 OD2 A:ASP474 4.6 21.5 1.0 PA A:GDP901 4.7 26.0 1.0 O A:HOH1073 4.7 33.0 1.0 CE A:LYS425 4.7 24.1 1.0 NZ A:LYS425 4.8 26.2 1.0 CG A:ASP474 4.9 22.1 1.0 O A:HOH1093 4.9 33.7 1.0 O1A A:GDP901 5.0 23.7 1.0

A.Banerjee, Y.Goldgur, B.Schwer, S.Shuman. Atomic Structures of the Rna End-Healing 5'-Oh Kinase and 2',3'-Cyclic Phosphodiesterase Domains of Fungal Trna Ligase: Conformational Switches in the Kinase Upon Binding of the Gtp Phosphate Donor. Nucleic Acids Res. 2019.
ISSN: ESSN 1362-4962
PubMed: 31722405
DOI: 10.1093/NAR/GKZ1049