Magnesium in PDB 6f5p: A Mechanism For the Activation of the Influenza Virus Transcriptase

All present enzymatic activity of A Mechanism For the Activation of the Influenza Virus Transcriptase:
2.7.7.48; 2.7.7.6;

The structure of A Mechanism For the Activation of the Influenza Virus Transcriptase, PDB code: 6f5p was solved by I.Serna Martin, J.M.Grimes, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	131.31 / 4.14
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	185.700, 185.700, 597.590, 90.00, 90.00, 90.00
R / Rfree (%)	26 / 29.6

The binding sites of Magnesium atom in the A Mechanism For the Activation of the Influenza Virus Transcriptase (pdb code 6f5p). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the A Mechanism For the Activation of the Influenza Virus Transcriptase, PDB code: 6f5p:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the A Mechanism For the Activation of the Influenza Virus Transcriptase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of A Mechanism For the Activation of the Influenza Virus Transcriptase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg800 b:0.1 occ:1.00 OE1 A:GLU104 2.8 0.2 1.0 MG A:MG801 3.3 0.1 1.0 OD2 A:ASP93 3.3 0.7 1.0 OD1 A:ASP93 3.4 0.2 1.0 NE2 A:HIS41 3.5 0.6 1.0 CD A:GLU104 3.5 0.6 1.0 CG A:GLU104 3.7 0.9 1.0 CE A:LYS119 3.8 0.6 1.0 O A:ILE105 3.8 0.9 1.0 CG A:ASP93 3.8 0.5 1.0 NZ A:LYS119 4.0 0.8 1.0 CE1 A:HIS41 4.2 0.3 1.0 CD2 A:HIS41 4.2 0.3 1.0 OE2 A:GLU65 4.4 0.6 1.0 OE2 A:GLU104 4.5 0.6 1.0 C A:ILE105 4.6 0.0 1.0 N A:ILE105 4.8 0.9 1.0

Magnesium binding site 2 out of 4 in the A Mechanism For the Activation of the Influenza Virus Transcriptase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of A Mechanism For the Activation of the Influenza Virus Transcriptase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg801 b:0.1 occ:1.00 OE2 A:GLU65 3.1 0.6 1.0 MG A:MG800 3.3 0.1 1.0 OD1 A:ASP93 3.3 0.2 1.0 OE1 A:GLU104 3.7 0.2 1.0 O A:LEU91 3.7 0.5 1.0 CD A:GLU65 4.1 0.7 1.0 CG A:ASP93 4.5 0.5 1.0 OE1 A:GLU65 4.5 0.2 1.0 CD A:GLU104 4.7 0.6 1.0 C A:LEU91 4.9 0.5 1.0 OD2 A:ASP93 5.0 0.7 1.0

Magnesium binding site 3 out of 4 in the A Mechanism For the Activation of the Influenza Virus Transcriptase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of A Mechanism For the Activation of the Influenza Virus Transcriptase within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg800 b:0.3 occ:1.00 OE1 D:GLU104 2.8 0.3 1.0 MG D:MG801 3.3 0.8 1.0 OD2 D:ASP93 3.3 0.4 1.0 OD1 D:ASP93 3.4 0.8 1.0 NE2 D:HIS41 3.5 0.1 1.0 CD D:GLU104 3.5 0.5 1.0 CG D:GLU104 3.7 0.8 1.0 CE D:LYS119 3.8 0.1 1.0 O D:ILE105 3.8 0.8 1.0 CG D:ASP93 3.8 0.5 1.0 NZ D:LYS119 4.0 0.4 1.0 CE1 D:HIS41 4.2 0.8 1.0 CD2 D:HIS41 4.2 0.3 1.0 OE2 D:GLU65 4.4 0.4 1.0 OE2 D:GLU104 4.5 1.0 1.0 C D:ILE105 4.6 0.5 1.0 N D:ILE105 4.8 0.5 1.0

Magnesium binding site 4 out of 4 in the A Mechanism For the Activation of the Influenza Virus Transcriptase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of A Mechanism For the Activation of the Influenza Virus Transcriptase within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg801 b:0.8 occ:1.00 OE2 D:GLU65 3.0 0.4 1.0 MG D:MG800 3.3 0.3 1.0 OD1 D:ASP93 3.3 0.8 1.0 OE1 D:GLU104 3.7 0.3 1.0 O D:LEU91 3.7 0.8 1.0 CD D:GLU65 4.1 0.6 1.0 CG D:ASP93 4.5 0.5 1.0 OE1 D:GLU65 4.5 0.9 1.0 CD D:GLU104 4.7 0.5 1.0 C D:LEU91 4.9 0.2 1.0 OD2 D:ASP93 5.0 0.4 1.0

I.Serna Martin, N.Hengrung, M.Renner, J.Sharps, M.Martinez-Alonso, S.Masiulis, J.M.Grimes, E.Fodor. A Mechanism For the Activation of the Influenza Virus Transcriptase. Mol. Cell V. 70 1101 2018.
ISSN: ISSN 1097-4164
PubMed: 29910112
DOI: 10.1016/J.MOLCEL.2018.05.011