Magnesium in PDB 3w1o: Neisseria Dna Mimic Protein DMP12

The structure of Neisseria Dna Mimic Protein DMP12, PDB code: 3w1o was solved by H.C.Wang, T.P.Ko, M.L.Wu, A.H.J.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 1.85
Space group	I 4
Cell size a, b, c (Å), α, β, γ (°)	112.519, 112.519, 57.128, 90.00, 90.00, 90.00
R / Rfree (%)	18.6 / 21.8

The binding sites of Magnesium atom in the Neisseria Dna Mimic Protein DMP12 (pdb code 3w1o). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Neisseria Dna Mimic Protein DMP12, PDB code: 3w1o:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Neisseria Dna Mimic Protein DMP12


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Neisseria Dna Mimic Protein DMP12 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg800 b:52.0 occ:1.00 O B:HOH1143 2.1 40.6 1.0 O A:HOH1063 2.2 55.9 1.0 OD1 A:ASP13 2.2 38.4 1.0 O A:HOH1065 2.2 39.9 1.0 O A:HOH992 2.3 37.8 1.0 O A:HOH1064 2.3 47.2 1.0 CG A:ASP13 3.4 38.1 1.0 O A:ASP13 4.0 36.2 1.0 OE1 B:GLU77 4.0 39.1 1.0 OD2 A:ASP13 4.1 42.8 1.0 O B:HOH1097 4.1 40.5 1.0 O A:HOH980 4.2 40.4 1.0 OD1 A:ASN110 4.5 31.1 1.0 OD1 A:ASN14 4.5 46.2 1.0 CB A:ASP13 4.5 33.3 1.0 C A:ASP13 4.6 34.4 1.0 CA A:ASP13 4.6 32.7 1.0 CD B:GLU77 4.6 38.4 1.0 O A:HOH1034 4.7 63.9 1.0 O A:ASN110 4.8 25.3 1.0

Magnesium binding site 2 out of 2 in the Neisseria Dna Mimic Protein DMP12


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Neisseria Dna Mimic Protein DMP12 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg900 b:45.0 occ:1.00 OD1 B:ASP13 2.0 37.1 1.0 O B:HOH1142 2.0 52.4 1.0 O B:HOH1140 2.1 36.6 1.0 O A:HOH1048 2.1 40.9 1.0 O B:HOH1120 2.2 37.3 1.0 O B:HOH1141 2.4 46.2 1.0 CG B:ASP13 3.2 39.6 1.0 OD2 B:ASP13 3.8 42.4 1.0 O B:ASP13 3.9 37.9 1.0 O B:HOH1073 4.1 44.1 1.0 OE1 A:GLU77 4.2 41.1 1.0 CB B:ASP13 4.3 34.9 1.0 OD1 B:ASN110 4.3 30.1 1.0 O A:HOH973 4.3 44.0 1.0 O B:HOH1062 4.4 34.7 1.0 O B:HOH1100 4.4 40.6 1.0 CA B:ASP13 4.4 35.0 1.0 C B:ASP13 4.5 35.8 1.0 O B:ASN110 4.6 25.4 1.0 CB B:ASN110 4.8 24.8 1.0 CD A:GLU77 4.9 40.4 1.0

H.C.Wang, M.L.Wu, T.P.Ko, A.H.Wang. Neisseria Conserved Hypothetical Protein DMP12 Is A Dna Mimic That Binds to Histone-Like Hu Protein Nucleic Acids Res. V. 41 5127 2013.
ISSN: ISSN 0305-1048
PubMed: 23531546
DOI: 10.1093/NAR/GKT201