Magnesium in PDB 1ohf: The Refined Structure of Nudaurelia Capensis Omega Virus

The structure of The Refined Structure of Nudaurelia Capensis Omega Virus, PDB code: 1ohf was solved by C.Helgstrand, S.Munshi, J.E.Johnson, L.Liljas, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.80
Space group	P 1 2
Cell size a, b, c (Å), α, β, γ (°)	413.550, 410.220, 419.670, 59.13, 58.90, 64.04
R / Rfree (%)	21.9 / 22.1

The binding sites of Magnesium atom in the The Refined Structure of Nudaurelia Capensis Omega Virus (pdb code 1ohf). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the The Refined Structure of Nudaurelia Capensis Omega Virus, PDB code: 1ohf:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the The Refined Structure of Nudaurelia Capensis Omega Virus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of The Refined Structure of Nudaurelia Capensis Omega Virus within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1645 b:43.5 occ:1.00 OD2 A:ASP207 2.6 59.6 1.0 OD2 A:ASP182 2.7 38.8 1.0 OD1 A:ASP182 2.8 38.8 1.0 CG A:ASP182 3.1 38.8 1.0 CG A:ASP207 3.8 59.6 1.0 OD1 A:ASP207 4.2 59.6 1.0 O A:ASP178 4.3 60.4 1.0 CB A:ASP178 4.4 60.4 1.0 CB A:ASP182 4.6 38.8 1.0 OD1 A:ASP178 4.7 60.4 1.0 C A:ASP178 4.7 60.4 1.0 CA A:ASP178 4.9 60.4 1.0 CG A:ASP178 4.9 60.4 1.0

Magnesium binding site 2 out of 4 in the The Refined Structure of Nudaurelia Capensis Omega Virus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of The Refined Structure of Nudaurelia Capensis Omega Virus within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1645 b:24.4 occ:1.00 OD2 B:ASP207 2.4 47.0 1.0 OD1 B:ASP182 2.5 37.3 1.0 O D:GLY330 2.5 65.5 1.0 O B:HOH2047 3.2 44.8 1.0 CG B:ASP182 3.3 37.3 1.0 OD2 B:ASP182 3.5 37.3 1.0 CG B:ASP207 3.6 47.0 1.0 C D:GLY330 3.6 65.5 1.0 OD1 B:ASP207 4.1 47.0 1.0 O B:ASP178 4.3 53.2 1.0 CA D:GLY330 4.3 65.5 1.0 OD1 B:ASP178 4.6 53.2 1.0 N D:GLY331 4.7 77.3 1.0 CB B:ASP182 4.7 37.3 1.0 CB B:ASP207 4.9 47.0 1.0 C D:GLY331 4.9 77.3 1.0 CA D:GLY331 4.9 77.3 1.0 O D:GLY331 5.0 77.3 1.0 C B:ASP178 5.0 53.2 1.0

Magnesium binding site 3 out of 4 in the The Refined Structure of Nudaurelia Capensis Omega Virus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of The Refined Structure of Nudaurelia Capensis Omega Virus within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg1645 b:40.6 occ:1.00 OD2 C:ASP207 2.6 53.2 1.0 OD1 C:ASP182 2.8 37.7 1.0 OD2 C:ASP182 2.9 37.7 1.0 CG C:ASP182 3.2 37.7 1.0 CG C:ASP207 3.8 53.2 1.0 OD1 C:ASP207 4.2 53.2 1.0 O C:ASP178 4.2 57.5 1.0 CB C:ASP178 4.3 57.5 1.0 C C:ASP178 4.6 57.5 1.0 CB C:ASP182 4.7 37.7 1.0 CA C:ASP178 4.8 57.5 1.0 OD1 C:ASP178 4.9 57.5 1.0 CG C:ASP178 5.0 57.5 1.0

Magnesium binding site 4 out of 4 in the The Refined Structure of Nudaurelia Capensis Omega Virus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of The Refined Structure of Nudaurelia Capensis Omega Virus within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg1645 b:25.7 occ:1.00 OD1 D:ASP182 2.5 39.5 1.0 OD2 D:ASP207 2.6 49.7 1.0 CG D:ASP182 3.3 39.5 1.0 OD2 D:ASP182 3.5 39.5 1.0 CG D:ASP207 3.5 49.7 1.0 OD1 D:ASP207 3.7 49.7 1.0 O D:ASP178 4.1 57.5 1.0 O D:HOH2038 4.1 25.7 1.0 CB D:ASP178 4.5 57.5 1.0 CB D:ASP182 4.7 39.5 1.0 C D:ASP178 4.7 57.5 1.0 CA D:ASP178 4.9 57.5 1.0 CB D:ASP207 5.0 49.7 1.0 CA D:ASP182 5.0 39.5 1.0 OD1 D:ASP178 5.0 57.5 1.0

C.Helgstrand, S.Munshi, J.E.Johnson, L.Liljas. The Refined Structure of Nudaurelia Capensis Omega Virus Reveals Control Elements For A T = 4 Capsid Maturation Virology V. 318 192 2004.
ISSN: ISSN 0042-6822
PubMed: 14972547
DOI: 10.1016/J.VIROL.2003.08.045