Magnesium in PDB 7lbx: Crystal Structure of Tfam (Mitochondrial Transcription Factor A) in Complex with Lsp

The structure of Crystal Structure of Tfam (Mitochondrial Transcription Factor A) in Complex with Lsp, PDB code: 7lbx was solved by W.S.Choi, M.Garcia-Diaz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.12 / 2.70
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	113.425, 120.507, 55.236, 90, 90, 90
R / Rfree (%)	20.8 / 24.2

The binding sites of Magnesium atom in the Crystal Structure of Tfam (Mitochondrial Transcription Factor A) in Complex with Lsp (pdb code 7lbx). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Tfam (Mitochondrial Transcription Factor A) in Complex with Lsp, PDB code: 7lbx:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Tfam (Mitochondrial Transcription Factor A) in Complex with Lsp


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 Tfam (Mitochondrial Transcription Factor A) in Complex with Lsp within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg101 b:85.7 occ:1.00 O6 D:DG18 2.3 80.6 1.0 O4 D:DT17 2.9 83.7 1.0 C6 D:DG18 3.2 79.5 1.0 N7 D:DG18 3.4 84.9 1.0 C7 D:DT17 3.6 94.1 1.0 C5 D:DG18 3.6 81.3 1.0 C4 D:DT17 3.8 85.2 1.0 N4 C:DC5 3.8 73.6 1.0 N6 C:DA4 3.8 77.7 1.0 N6 C:DA6 4.1 77.4 1.0 C5 D:DT17 4.1 97.0 1.0 O4 D:DT19 4.3 86.0 1.0 N1 D:DG18 4.5 76.1 1.0 C8 D:DG18 4.7 85.2 1.0 C5 D:DC16 4.9 102.7 1.0 C4 D:DG18 5.0 79.6 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Tfam (Mitochondrial Transcription Factor A) in Complex with Lsp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Tfam (Mitochondrial Transcription Factor A) in Complex with Lsp within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg102 b:88.7 occ:1.00 O C:HOH102 2.3 99.7 1.0 N3 D:DG12 2.6 113.0 1.0 N2 D:DG11 2.6 108.6 1.0 O2 C:DC12 2.7 103.6 1.0 C4 D:DG12 3.2 113.0 1.0 C2 D:DG12 3.4 107.2 1.0 C1' D:DG12 3.4 111.9 1.0 O4' D:DG12 3.6 116.8 1.0 N9 D:DG12 3.6 115.6 1.0 O4' C:DC13 3.6 99.2 1.0 N2 D:DG12 3.7 102.2 1.0 C2 D:DG11 3.7 117.5 1.0 C2 C:DC12 3.8 103.9 1.0 N3 C:DC12 4.2 104.4 1.0 O2 C:DC13 4.2 99.5 1.0 O D:HOH201 4.3 97.7 1.0 C5 D:DG12 4.3 113.8 1.0 C1' C:DC13 4.4 99.0 1.0 C2 C:DC13 4.4 101.4 1.0 N1 D:DG12 4.4 109.4 1.0 N1 D:DG11 4.4 114.5 1.0 N3 D:DG11 4.5 123.9 1.0 N1 C:DC13 4.5 97.9 1.0 O4' D:DT13 4.6 99.8 1.0 C4' D:DG12 4.6 124.9 1.0 C4' C:DC13 4.6 95.8 1.0 C8 D:DG12 4.7 113.3 1.0 C2' D:DG12 4.8 114.9 1.0 C6 D:DG12 4.9 113.5 1.0 N1 C:DC12 5.0 105.7 1.0 C5' D:DT13 5.0 93.5 1.0 O3' D:DG12 5.0 114.4 1.0

W.S.Choi, M.Garcia-Diaz. A Minimal Motif For Sequence Recognition By Mitochondrial Transcription Factor A (Tfam). Nucleic Acids Res. V. 50 322 2022.
ISSN: ESSN 1362-4962
PubMed: 34928349
DOI: 10.1093/NAR/GKAB1230