Manganese in PDB 9e92: Acanthamoeba Polyphaga Mimivirus R699

The structure of Acanthamoeba Polyphaga Mimivirus R699, PDB code: 9e92 was solved by C.Buhlheller, S.J.Richards, J.S.Kim, T.Chen, J.Wu, H.Guo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	60.97 / 1.50
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	69.153, 124.998, 72.757, 90, 118.3, 90
R / Rfree (%)	16.6 / 18.9

The binding sites of Manganese atom in the Acanthamoeba Polyphaga Mimivirus R699 (pdb code 9e92). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Acanthamoeba Polyphaga Mimivirus R699, PDB code: 9e92:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Acanthamoeba Polyphaga Mimivirus R699


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Acanthamoeba Polyphaga Mimivirus R699 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn502 b:13.0 occ:1.00 HE2 A:HIS216 1.4 12.9 0.0 OD2 A:ASP83 2.1 14.5 1.0 O2B A:UDP501 2.1 14.9 0.9 NE2 A:HIS216 2.2 12.9 1.0 O2A A:UDP501 2.2 14.8 0.9 OD2 A:ASP86 2.3 12.3 1.0 OD1 A:ASP86 2.4 11.5 1.0 CG A:ASP86 2.6 11.8 1.0 H5'1 A:UDP501 3.1 16.3 0.9 CG A:ASP83 3.1 11.4 1.0 HB3 A:ASP83 3.2 12.5 1.0 CD2 A:HIS216 3.2 12.6 1.0 CE1 A:HIS216 3.2 14.1 1.0 PB A:UDP501 3.3 17.4 0.9 HD2 A:HIS216 3.4 12.7 1.0 HE1 A:HIS216 3.4 13.6 1.0 PA A:UDP501 3.4 19.3 0.9 O3A A:UDP501 3.5 24.0 0.9 CB A:ASP83 3.5 13.1 1.0 HO2 C:GLC2 3.6 14.1 0.9 HB2 A:ASP83 3.6 12.5 1.0 HA A:ASN218 3.6 14.5 1.0 HO3' A:UDP501 3.6 14.6 0.0 HO3 C:GLC2 3.9 13.1 0.9 O3' A:UDP501 3.9 14.6 0.9 C5' A:UDP501 4.0 16.1 0.9 HZ2 A:LYS222 4.0 15.7 1.0 O2 C:GLC2 4.1 14.1 0.9 H3 C:GLC2 4.1 13.7 0.9 CB A:ASP86 4.1 12.4 1.0 O1B A:UDP501 4.1 18.4 0.9 O5' A:UDP501 4.3 17.2 0.9 HZ3 A:LYS222 4.3 15.7 1.0 OD1 A:ASP83 4.3 12.9 1.0 HB3 A:ASN218 4.4 13.8 1.0 ND1 A:HIS216 4.4 13.4 1.0 O3 C:GLC2 4.4 13.0 0.9 CG A:HIS216 4.4 12.5 1.0 O3B A:UDP501 4.5 28.5 0.9 HB3 A:ASP86 4.5 12.0 1.0 CA A:ASN218 4.5 14.8 1.0 H A:ASP86 4.5 12.1 1.0 HB2 A:ASP86 4.5 12.0 1.0 H4' A:UDP501 4.6 15.8 0.9 HB2 A:ASN218 4.6 13.8 1.0 H A:GLY219 4.6 16.6 1.0 O1A A:UDP501 4.6 26.8 0.9 NZ A:LYS222 4.6 15.0 1.0 HA3 A:GLY140 4.6 13.5 1.0 C4' A:UDP501 4.6 15.8 0.9 C3 C:GLC2 4.7 13.4 0.9 H5'2 A:UDP501 4.7 16.3 0.9 C3' A:UDP501 4.7 16.5 0.9 CB A:ASN218 4.7 13.2 1.0 HB2 A:LEU87 4.8 10.9 1.0 HO2 C:BGC1 4.8 25.8 0.0 O A:ASP86 5.0 11.5 1.0

Manganese binding site 2 out of 2 in the Acanthamoeba Polyphaga Mimivirus R699


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Acanthamoeba Polyphaga Mimivirus R699 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn502 b:12.4 occ:1.00 HE2 B:HIS216 1.3 12.9 0.0 OD2 B:ASP83 2.1 13.9 1.0 NE2 B:HIS216 2.2 12.9 1.0 O2B B:UDP501 2.2 8.9 0.5 OD2 B:ASP86 2.2 12.2 1.0 O2A B:UDP501 2.2 11.9 0.5 OD1 B:ASP86 2.4 11.9 1.0 CG B:ASP86 2.6 11.6 1.0 HO3' B:UDP501 2.9 15.4 0.0 H5'1 B:UDP501 3.1 20.4 0.5 CG B:ASP83 3.1 14.6 1.0 CE1 B:HIS216 3.2 13.1 1.0 HB3 B:ASP83 3.2 13.4 1.0 CD2 B:HIS216 3.2 11.1 1.0 HE1 B:HIS216 3.3 13.0 1.0 PB B:UDP501 3.4 18.0 0.5 PA B:UDP501 3.4 23.5 0.5 HD2 B:HIS216 3.4 11.7 1.0 HB2 B:ASP83 3.5 13.4 1.0 CB B:ASP83 3.5 13.0 1.0 HA B:ASN218 3.6 12.8 1.0 O3A B:UDP501 3.6 18.8 0.5 C5' B:UDP501 4.0 20.3 0.5 O1B B:UDP501 4.1 16.0 0.5 CB B:ASP86 4.2 11.7 1.0 O3' B:UDP501 4.2 15.6 0.5 OD1 B:ASP83 4.3 16.2 1.0 ND1 B:HIS216 4.3 12.8 1.0 O5' B:UDP501 4.4 21.6 0.5 HB3 B:ASN218 4.4 12.7 1.0 CG B:HIS216 4.4 12.0 1.0 H B:GLY219 4.4 14.6 1.0 CA B:ASN218 4.5 13.1 1.0 HB3 B:ASP86 4.5 11.6 1.0 HB2 B:ASP86 4.5 11.6 1.0 H4' B:UDP501 4.6 19.6 0.5 O1A B:UDP501 4.6 22.5 0.5 C4' B:UDP501 4.6 19.8 0.5 HB2 B:ASN218 4.6 12.7 1.0 H B:ASP86 4.6 12.1 1.0 O3B B:UDP501 4.6 19.1 0.5 H5'2 B:UDP501 4.7 20.5 0.5 HA3 B:GLY140 4.7 14.5 1.0 C3' B:UDP501 4.7 18.3 0.5 O B:HOH797 4.7 15.5 1.0 CB B:ASN218 4.8 12.6 1.0 HB2 B:LEU87 4.9 12.0 1.0 H3' B:UDP501 5.0 18.2 0.5

S.J.Richards, C.Buhlheller, J.S.Kim, T.Chen, J.Wu, H.Guo. Acanthamoeba Polyphaga Mimivirus R699 To Be Published.