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Magnesium in PDB 9r96: Cryo-Em Structure of the Human Mitochondrial Rna Polymerase Transcription Initiation Complex (Polrmt/Tfam/TFB2M/Dna/Rna) with A Slipped 3-Mer Rna (Pppgpgpa) and Gtp Poised For Catalysis (Slipped Pre-IC4)

Enzymatic activity of Cryo-Em Structure of the Human Mitochondrial Rna Polymerase Transcription Initiation Complex (Polrmt/Tfam/TFB2M/Dna/Rna) with A Slipped 3-Mer Rna (Pppgpgpa) and Gtp Poised For Catalysis (Slipped Pre-IC4)

All present enzymatic activity of Cryo-Em Structure of the Human Mitochondrial Rna Polymerase Transcription Initiation Complex (Polrmt/Tfam/TFB2M/Dna/Rna) with A Slipped 3-Mer Rna (Pppgpgpa) and Gtp Poised For Catalysis (Slipped Pre-IC4):
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/Tfam/TFB2M/Dna/Rna) with A Slipped 3-Mer Rna (Pppgpgpa) and Gtp Poised For Catalysis (Slipped Pre-IC4) (pdb code 9r96). 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/Tfam/TFB2M/Dna/Rna) with A Slipped 3-Mer Rna (Pppgpgpa) and Gtp Poised For Catalysis (Slipped Pre-IC4), PDB code: 9r96:

Magnesium binding site 1 out of 1 in 9r96

Go back to Magnesium Binding Sites List in 9r96
Magnesium binding site 1 out of 1 in the Cryo-Em Structure of the Human Mitochondrial Rna Polymerase Transcription Initiation Complex (Polrmt/Tfam/TFB2M/Dna/Rna) with A Slipped 3-Mer Rna (Pppgpgpa) and Gtp Poised For Catalysis (Slipped Pre-IC4)


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/Tfam/TFB2M/Dna/Rna) with A Slipped 3-Mer Rna (Pppgpgpa) and Gtp Poised For Catalysis (Slipped Pre-IC4) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1302

b:51.9
occ:1.00
OD2 A:ASP1151 2.0 65.4 1.0
OD1 A:ASP922 2.1 69.7 1.0
O A:GLY923 2.3 67.5 1.0
O2B A:GTP1301 2.5 64.9 1.0
O3G A:GTP1301 2.6 60.5 1.0
O2A A:GTP1301 2.8 76.2 1.0
CG A:ASP922 3.0 74.2 1.0
CG A:ASP1151 3.1 62.3 1.0
OD2 A:ASP922 3.2 76.1 1.0
C A:GLY923 3.5 61.4 1.0
OD1 A:ASP1151 3.6 62.4 1.0
PB A:GTP1301 3.7 72.7 1.0
PG A:GTP1301 3.9 72.2 1.0
PA A:GTP1301 3.9 76.4 1.0
N A:GLY923 4.0 58.9 1.0
O3A A:GTP1301 4.1 73.8 1.0
C5' A:GTP1301 4.2 66.1 1.0
O3B A:GTP1301 4.2 73.0 1.0
CA A:GLY923 4.3 56.3 1.0
CB A:ASP1151 4.4 46.0 1.0
CB A:ASP922 4.4 67.4 1.0
N A:SER924 4.4 60.8 1.0
O1G A:GTP1301 4.5 70.1 1.0
O5' A:GTP1301 4.6 69.7 1.0
CA A:SER924 4.6 64.9 1.0
C A:ASP922 4.8 61.8 1.0
N A:CYS925 4.9 58.1 1.0
O1B A:GTP1301 5.0 65.2 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 23 06:15:22 2025

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