Magnesium in PDB 8wh0: Mpox E5 Hexamer Ssdna and Amp-Pnp Bound Conformation

The binding sites of Magnesium atom in the Mpox E5 Hexamer Ssdna and Amp-Pnp Bound Conformation (pdb code 8wh0). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Mpox E5 Hexamer Ssdna and Amp-Pnp Bound Conformation, PDB code: 8wh0:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Mpox E5 Hexamer Ssdna and Amp-Pnp Bound Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Mpox E5 Hexamer Ssdna and Amp-Pnp Bound Conformation within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg801 b:3.8 occ:1.00 OG A:SER510 2.1 4.8 1.0 N3B A:ANP802 2.7 1.8 1.0 CB A:SER510 3.2 6.5 1.0 O3G A:ANP802 3.2 0.8 1.0 PG A:ANP802 3.5 2.0 1.0 O3A A:ANP802 3.6 0.0 1.0 PB A:ANP802 3.7 2.9 1.0 OE2 B:GLU579 3.8 31.6 1.0 O2G A:ANP802 4.0 5.4 1.0 O2B A:ANP802 4.0 2.5 1.0 NH2 B:ARG620 4.1 6.9 1.0 CA A:SER510 4.3 9.5 1.0 CD B:GLU579 4.3 32.4 1.0 N A:SER510 4.3 1.9 1.0 OE1 B:GLU579 4.4 35.8 1.0 NZ B:LYS575 4.6 7.9 1.0 OE2 A:GLU557 4.7 79.5 1.0 O2A A:ANP802 4.8 9.4 1.0 PA A:ANP802 4.8 3.7 1.0 O1G A:ANP802 4.8 5.1 1.0 CE B:LYS575 4.9 12.4 1.0

Magnesium binding site 2 out of 4 in the Mpox E5 Hexamer Ssdna and Amp-Pnp Bound Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Mpox E5 Hexamer Ssdna and Amp-Pnp Bound Conformation within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg801 b:6.4 occ:1.00 O2B F:ANP802 2.0 6.9 1.0 OG B:SER510 2.5 9.5 1.0 O2G F:ANP802 2.6 1.8 1.0 PB F:ANP802 3.3 1.6 1.0 CB B:SER510 3.3 7.1 1.0 N3B F:ANP802 3.6 7.0 1.0 PG F:ANP802 3.6 3.2 1.0 O3A F:ANP802 4.1 5.6 1.0 N B:SER510 4.1 8.9 1.0 O2A F:ANP802 4.1 8.1 1.0 CA B:SER510 4.2 9.1 1.0 O1G F:ANP802 4.3 6.8 1.0 O1B F:ANP802 4.5 3.9 1.0 NH2 F:ARG620 4.7 0.0 1.0 OE2 F:GLU579 4.7 14.9 1.0 PA F:ANP802 4.8 7.6 1.0 OD2 B:ASP603 4.8 34.3 1.0 OE1 F:GLU579 4.9 19.3 1.0 O3G F:ANP802 4.9 4.7 1.0 NZ F:LYS575 4.9 8.8 1.0

Magnesium binding site 3 out of 4 in the Mpox E5 Hexamer Ssdna and Amp-Pnp Bound Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Mpox E5 Hexamer Ssdna and Amp-Pnp Bound Conformation within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg801 b:0.0 occ:1.00 O2B C:ANP802 2.5 29.4 1.0 OG C:SER510 2.5 15.4 1.0 O2G C:ANP802 2.6 29.1 1.0 CB C:SER510 3.1 0.3 1.0 O1A C:ANP802 3.4 32.1 1.0 N3B C:ANP802 3.5 30.5 1.0 PB C:ANP802 3.5 33.4 1.0 PG C:ANP802 3.6 29.0 1.0 OE2 A:GLU579 4.1 32.3 1.0 NH2 A:ARG620 4.2 2.0 1.0 CA C:SER510 4.2 0.0 1.0 N C:SER510 4.2 0.0 1.0 O3A C:ANP802 4.4 29.3 1.0 OE2 C:GLU557 4.5 24.0 1.0 PA C:ANP802 4.5 36.7 1.0 NZ A:LYS575 4.5 17.2 1.0 CD A:GLU579 4.6 31.5 1.0 O3G C:ANP802 4.6 36.8 1.0 OE1 A:GLU579 4.6 24.0 1.0 O1G C:ANP802 4.6 26.8 1.0 O1B C:ANP802 4.8 34.7 1.0

Magnesium binding site 4 out of 4 in the Mpox E5 Hexamer Ssdna and Amp-Pnp Bound Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Mpox E5 Hexamer Ssdna and Amp-Pnp Bound Conformation within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg801 b:8.7 occ:1.00 OG F:SER510 2.1 16.2 1.0 O2G F:ANP803 2.3 11.4 1.0 O2B F:ANP803 2.8 7.9 1.0 CB F:SER510 3.2 2.9 1.0 PG F:ANP803 3.5 17.9 1.0 N3B F:ANP803 3.7 1.6 1.0 O1A F:ANP803 3.7 13.6 1.0 PB F:ANP803 3.8 0.7 1.0 NZ D:LYS575 4.2 24.3 1.0 NH2 D:ARG620 4.2 19.1 1.0 CA F:SER510 4.3 0.3 1.0 N F:SER510 4.3 0.0 1.0 O1G F:ANP803 4.5 7.2 1.0 O3G F:ANP803 4.5 12.7 1.0 OE2 D:GLU579 4.6 35.8 1.0 OD2 F:ASP603 4.7 18.6 1.0 O3A F:ANP803 4.7 7.0 1.0 OE1 D:GLU579 4.8 36.0 1.0 PA F:ANP803 4.8 13.3 1.0 CD D:GLU579 4.9 37.5 1.0 CE D:LYS575 5.0 19.7 1.0

Y.Xu, Y.Wu, Y.Zhang, K.Gao, X.Wu, Y.Yang, D.Li, B.Yang, Z.Zhang, C.Dong. Essential and Multifunctional Mpox Virus E5 Helicase-Primase in Double and Single Hexamer. Sci Adv V. 10 L1150 2024.
ISSN: ESSN 2375-2548
PubMed: 39167653
DOI: 10.1126/SCIADV.ADL1150