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Magnesium in PDB 9gzn: Cryo-Em Structure of the Human Mitochondrial Rna Polymerase Transcription Initiation Complex (Polrmt/TFB2M/Dna/Rna) Without Tfam; and with A 2-Mer Rna (Pppgpa) and Gtp Poised For Catalysis (Pre-IC3- Tfam)

Enzymatic activity of Cryo-Em Structure of the Human Mitochondrial Rna Polymerase Transcription Initiation Complex (Polrmt/TFB2M/Dna/Rna) Without Tfam; and with A 2-Mer Rna (Pppgpa) and Gtp Poised For Catalysis (Pre-IC3- Tfam)

All present enzymatic activity of Cryo-Em Structure of the Human Mitochondrial Rna Polymerase Transcription Initiation Complex (Polrmt/TFB2M/Dna/Rna) Without Tfam; and with A 2-Mer Rna (Pppgpa) and Gtp Poised For Catalysis (Pre-IC3- Tfam):
2.7.7.6;

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of the Human Mitochondrial Rna Polymerase Transcription Initiation Complex (Polrmt/TFB2M/Dna/Rna) Without Tfam; and with A 2-Mer Rna (Pppgpa) and Gtp Poised For Catalysis (Pre-IC3- Tfam) (pdb code 9gzn). 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 Cryo-Em Structure of the Human Mitochondrial Rna Polymerase Transcription Initiation Complex (Polrmt/TFB2M/Dna/Rna) Without Tfam; and with A 2-Mer Rna (Pppgpa) and Gtp Poised For Catalysis (Pre-IC3- Tfam), PDB code: 9gzn:

Magnesium binding site 1 out of 1 in 9gzn

Go back to Magnesium Binding Sites List in 9gzn
Magnesium binding site 1 out of 1 in the Cryo-Em Structure of the Human Mitochondrial Rna Polymerase Transcription Initiation Complex (Polrmt/TFB2M/Dna/Rna) Without Tfam; and with A 2-Mer Rna (Pppgpa) and Gtp Poised For Catalysis (Pre-IC3- Tfam)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of the Human Mitochondrial Rna Polymerase Transcription Initiation Complex (Polrmt/TFB2M/Dna/Rna) Without Tfam; and with A 2-Mer Rna (Pppgpa) and Gtp Poised For Catalysis (Pre-IC3- Tfam) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1302

b:55.0
occ:1.00
 O2B A:GTP1301 1.8 58.8 1.0
O A:GLY923 2.2 49.3 1.0
OD1 A:ASP922 2.3 50.0 1.0
O2A A:GTP1301 2.5 58.8 1.0
O3G A:GTP1301 2.5 58.8 1.0
OD2 A:ASP1151 2.6 50.8 1.0
PB A:GTP1301 3.0 58.8 1.0
O3B A:GTP1301 3.2 58.8 1.0
CG A:ASP922 3.4 50.0 1.0
C A:GLY923 3.4 49.3 1.0
PG A:GTP1301 3.5 58.8 1.0
CG A:ASP1151 3.5 50.8 1.0
PA A:GTP1301 3.6 58.8 1.0
O3A A:GTP1301 3.6 58.8 1.0
OD2 A:ASP922 3.9 50.0 1.0
N A:GLY923 4.0 49.3 1.0
OD1 A:ASP1151 4.0 50.8 1.0
O2G A:GTP1301 4.1 58.8 1.0
CA A:GLY923 4.2 49.3 1.0
C5' A:GTP1301 4.2 58.8 1.0
O1B A:GTP1301 4.3 58.8 1.0
N A:SER924 4.4 51.8 1.0
O5' A:GTP1301 4.5 58.8 1.0
CA A:SER924 4.5 51.8 1.0
CB A:ASP1151 4.6 50.8 1.0
CB A:ASP922 4.7 50.0 1.0
O1G A:GTP1301 4.7 58.8 1.0
O1A A:GTP1301 4.8 58.8 1.0
N A:CYS925 5.0 52.2 1.0

Reference:

Q.Goovaerts, J.Shen, Y.Ajjugal, B.De Wijngaert, S.S.Patel, K.Das. Cryo-Em Structure of the Human Mitochondrial Rna Polymerase Transcription Initiation Complex (Polrmt/Tfam/TFB2M/Dna/Rna) with A 2-Mer Rna (Pppgpa) and Gtp Poised For Catalysis (Pre-IC3) Molecular Cell V. 85 1 2025.
DOI: 10.1016/J.MOLCEL.2025.07.002
Page generated: Sat Aug 16 03:52:54 2025

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