Magnesium in PDB 7dv3: Structure of Sulfolobus Solfataricus Sega-Amppnp Protein

The structure of Structure of Sulfolobus Solfataricus Sega-Amppnp Protein, PDB code: 7dv3 was solved by C.Y.Yen, M.G.Lin, C.T.Wu, C.D.Hsiao, Y.J.Sun, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	27.04 / 2.60
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	53.293, 62.058, 145.53, 90, 90, 90
R / Rfree (%)	21.3 / 26.8

The binding sites of Magnesium atom in the Structure of Sulfolobus Solfataricus Sega-Amppnp Protein (pdb code 7dv3). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structure of Sulfolobus Solfataricus Sega-Amppnp Protein, PDB code: 7dv3:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Structure of Sulfolobus Solfataricus Sega-Amppnp Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Sulfolobus Solfataricus Sega-Amppnp Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:34.9 occ:1.00 OG1 A:THR15 1.9 27.8 1.0 O3G A:ANP301 1.9 32.7 1.0 O A:HOH401 2.0 32.1 1.0 O A:HOH403 2.2 28.4 1.0 O A:HOH408 2.2 28.4 1.0 O2B A:ANP301 2.5 34.0 1.0 CB A:THR15 3.3 30.8 1.0 PG A:ANP301 3.4 35.8 1.0 O A:HOH409 3.6 32.0 1.0 OD2 A:ASP37 3.7 38.3 1.0 OD2 A:ASP105 3.7 33.4 1.0 PB A:ANP301 3.7 34.0 1.0 N3B A:ANP301 3.9 34.0 1.0 N A:THR15 4.0 32.9 1.0 CA A:THR15 4.1 31.9 1.0 OD1 A:ASP105 4.1 29.3 1.0 CG2 A:THR15 4.2 32.1 1.0 O2G A:ANP301 4.2 33.2 1.0 CG A:ASP105 4.3 32.1 1.0 O2A A:ANP301 4.3 33.2 1.0 O A:HOH404 4.4 37.0 1.0 CA A:GLY41 4.4 24.9 1.0 O1G A:ANP301 4.4 35.6 1.0 O1B A:ANP301 4.5 37.4 1.0 CG A:ASP37 4.7 37.5 1.0 N A:GLY41 4.7 28.4 1.0 CE A:LYS14 4.8 33.5 1.0 O A:THR106 4.8 35.4 1.0 CB A:ASP37 4.9 32.7 1.0 CB A:LYS14 4.9 33.0 1.0 O3A A:ANP301 4.9 35.4 1.0

Magnesium binding site 2 out of 4 in the Structure of Sulfolobus Solfataricus Sega-Amppnp Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Sulfolobus Solfataricus Sega-Amppnp Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg303 b:35.0 occ:1.00 O A:HOH411 2.0 40.6 1.0 O A:HOH405 2.0 40.8 1.0 O B:HOH410 2.1 33.0 1.0 O B:HOH408 2.2 32.2 1.0 O B:HOH405 2.3 37.2 1.0 O A:HOH407 2.6 33.6 1.0 OE2 A:GLU51 3.9 41.3 1.0 OE1 A:GLU51 4.2 34.3 1.0 NZ A:LYS53 4.2 45.5 1.0 OE2 B:GLU68 4.3 31.4 1.0 OE1 B:GLU68 4.4 35.1 1.0 CD A:GLU51 4.4 42.3 1.0 CD B:GLU68 4.7 32.5 1.0

Magnesium binding site 3 out of 4 in the Structure of Sulfolobus Solfataricus Sega-Amppnp Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Sulfolobus Solfataricus Sega-Amppnp Protein within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg302 b:36.0 occ:1.00 O B:HOH407 2.0 37.7 1.0 O2B B:ANP301 2.0 35.0 1.0 OG1 B:THR15 2.0 33.2 1.0 O B:HOH406 2.1 31.4 1.0 O3G B:ANP301 2.2 45.3 1.0 O B:HOH403 2.3 32.4 1.0 CB B:THR15 3.2 32.2 1.0 PB B:ANP301 3.3 34.2 1.0 PG B:ANP301 3.4 37.1 1.0 N3B B:ANP301 3.5 39.0 1.0 OD2 B:ASP105 3.7 37.2 1.0 N B:THR15 3.7 38.4 1.0 CA B:THR15 3.9 34.9 1.0 O1B B:ANP301 4.0 40.4 1.0 OD2 B:ASP37 4.1 42.2 1.0 O2A B:ANP301 4.1 33.5 1.0 O1G B:ANP301 4.2 40.9 1.0 O B:HOH402 4.3 33.6 1.0 OD1 B:ASP105 4.3 36.6 1.0 CG2 B:THR15 4.3 27.7 1.0 CB B:LYS14 4.4 38.7 1.0 CG B:ASP105 4.4 37.8 1.0 O3A B:ANP301 4.5 36.9 1.0 O2G B:ANP301 4.5 46.0 1.0 CE B:LYS14 4.6 42.2 1.0 O B:THR106 4.6 41.3 1.0 C B:LYS14 4.6 36.1 1.0 CA B:GLY41 4.8 29.5 1.0 PA B:ANP301 4.8 40.3 1.0 NZ B:LYS14 4.9 41.9 1.0 CA B:LYS14 5.0 38.3 1.0

Magnesium binding site 4 out of 4 in the Structure of Sulfolobus Solfataricus Sega-Amppnp Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Sulfolobus Solfataricus Sega-Amppnp Protein within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg303 b:32.8 occ:1.00 O B:HOH401 2.0 34.9 1.0 O A:HOH410 2.1 34.4 1.0 O A:HOH412 2.2 31.2 1.0 O B:HOH409 2.3 39.6 1.0 O A:HOH406 2.3 29.8 1.0 O B:HOH404 2.5 39.2 1.0 OE2 B:GLU51 3.6 38.3 1.0 OE2 A:GLU68 4.2 35.4 1.0 OE1 B:GLU51 4.3 35.4 1.0 CD B:GLU51 4.3 37.6 1.0 NZ B:LYS53 4.5 34.3 1.0 OE1 A:GLU68 4.6 35.7 1.0 CD A:GLU68 4.8 35.8 1.0

C.Y.Yen, M.G.Lin, B.W.Chen, I.W.Ng, N.Read, A.F.Kabli, C.T.Wu, Y.Y.Shen, C.H.Chen, D.Barilla, Y.J.Sun, C.D.Hsiao. Chromosome Segregation in Archaea: Sega- and Segb-Dna Complex Structures Provide Insights Into Segrosome Assembly. Nucleic Acids Res. 2021.
ISSN: ESSN 1362-4962
PubMed: 34850144
DOI: 10.1093/NAR/GKAB1155