Manganese in PDB 8iqc: Crystal Structure of Asfvprimpol N-Terminal Prim/Pol Domain in Complex with MN2+

The structure of Crystal Structure of Asfvprimpol N-Terminal Prim/Pol Domain in Complex with MN2+, PDB code: 8iqc was solved by Z.W.Shao, J.H.Gan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.55 / 2.00
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	128.424, 43.922, 87.584, 90, 93.29, 90
R / Rfree (%)	24.4 / 27.7

The binding sites of Manganese atom in the Crystal Structure of Asfvprimpol N-Terminal Prim/Pol Domain in Complex with MN2+ (pdb code 8iqc). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the Crystal Structure of Asfvprimpol N-Terminal Prim/Pol Domain in Complex with MN2+, PDB code: 8iqc:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in the Crystal Structure of Asfvprimpol N-Terminal Prim/Pol Domain in Complex with MN2+


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Asfvprimpol N-Terminal Prim/Pol Domain in Complex with MN2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn301 b:46.8 occ:1.00 O A:HOH420 2.2 10.3 1.0 OD1 A:ASP99 2.3 20.6 0.5 O A:HOH500 2.6 36.5 1.0 OD1 A:ASP97 2.6 13.8 1.0 O A:HOH459 2.7 23.4 1.0 OD2 A:ASP97 2.9 17.7 1.0 CG A:ASP97 3.1 20.0 1.0 O A:HOH493 3.2 22.7 1.0 MN A:MN302 3.4 62.4 1.0 CG A:ASP99 3.5 20.4 0.5 NE2 A:HIS157 3.9 13.7 1.0 OD2 A:ASP99 4.0 23.7 0.5 OH A:TYR221 4.0 9.1 1.0 O A:TYR98 4.4 8.5 1.0 CB A:ASP97 4.6 12.4 1.0 CB A:ASP99 4.6 27.4 0.5 CB A:ASP99 4.6 22.7 0.5 CD2 A:HIS157 4.7 8.7 1.0 C A:TYR98 4.8 15.8 1.0 CA A:ASP99 4.9 20.2 0.5 CA A:ASP99 4.9 18.2 0.5 CE1 A:HIS157 4.9 13.6 1.0 CZ A:TYR221 4.9 12.2 1.0 CG A:ASP99 5.0 22.6 0.5

Manganese binding site 2 out of 4 in the Crystal Structure of Asfvprimpol N-Terminal Prim/Pol Domain in Complex with MN2+


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of Asfvprimpol N-Terminal Prim/Pol Domain in Complex with MN2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn302 b:62.4 occ:1.00 OD2 A:ASP99 2.3 23.7 0.5 OD2 A:ASP200 2.6 26.9 1.0 OD2 A:ASP97 2.7 17.7 1.0 OD1 A:ASP99 3.0 20.6 0.5 CG A:ASP99 3.0 20.4 0.5 MN A:MN301 3.4 46.8 1.0 O A:HOH500 3.4 36.5 1.0 CG A:ASP200 3.5 24.6 1.0 CG A:ASP97 3.5 20.0 1.0 CB A:ASP200 3.7 19.4 1.0 OD1 A:ASP97 4.1 13.8 1.0 CB A:ASP99 4.5 22.7 0.5 CB A:ASP99 4.5 27.4 0.5 CB A:ASP97 4.5 12.4 1.0 OD1 A:ASP200 4.7 33.8 1.0 CG A:ASP99 4.9 22.6 0.5 OD2 A:ASP99 5.0 24.3 0.5 O A:ASP97 5.0 8.5 1.0

Manganese binding site 3 out of 4 in the Crystal Structure of Asfvprimpol N-Terminal Prim/Pol Domain in Complex with MN2+


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Crystal Structure of Asfvprimpol N-Terminal Prim/Pol Domain in Complex with MN2+ within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn301 b:87.4 occ:1.00 OD1 B:ASP97 2.3 40.9 1.0 O B:HOH438 2.6 32.0 1.0 CG B:ASP97 2.9 41.1 1.0 OD2 B:ASP97 2.9 49.8 1.0 O B:HOH444 3.1 36.2 1.0 NE2 B:HIS157 3.2 31.0 1.0 MN B:MN302 4.0 87.9 1.0 CD2 B:HIS157 4.1 29.5 1.0 CE1 B:HIS157 4.2 34.2 1.0 OH B:TYR221 4.2 30.3 1.0 CB B:ASP97 4.3 34.4 1.0 O B:TYR98 4.7 34.4 1.0 CZ B:TYR221 4.9 30.9 1.0

Manganese binding site 4 out of 4 in the Crystal Structure of Asfvprimpol N-Terminal Prim/Pol Domain in Complex with MN2+


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Crystal Structure of Asfvprimpol N-Terminal Prim/Pol Domain in Complex with MN2+ within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn302 b:87.9 occ:1.00 OD2 B:ASP97 2.6 49.8 1.0 OD2 B:ASP200 2.8 48.2 1.0 CB B:ASP200 3.1 40.1 1.0 CG B:ASP200 3.2 41.2 1.0 CG B:ASP97 3.8 41.1 1.0 MN B:MN301 4.0 87.4 1.0 OD1 B:ASP200 4.2 45.7 1.0 OD1 B:ASP97 4.4 40.9 1.0 CA B:ASP200 4.4 37.3 1.0 CB B:ASP97 4.9 34.4 1.0

Z.W.Shao, J.H.Gan. Structures and Implications of the Primpol Protein of African Swine Fever Virus To Be Published.