Magnesium in PDB 7dwr: Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna

The structure of Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna, PDB code: 7dwr was solved by C.Y.Yen, M.G.Lin, 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)	27.68 / 2.80
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	220, 60.541, 132.143, 90, 127.01, 90
R / Rfree (%)	23.9 / 29.8

The binding sites of Magnesium atom in the Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna (pdb code 7dwr). 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-Adp Complex Bound to Dna, PDB code: 7dwr:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna


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-Adp Complex Bound to Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:40.1 occ:1.00 O A:HOH401 2.1 30.3 1.0 O A:HOH406 2.6 35.3 1.0 O A:HOH405 2.6 33.9 1.0 O A:HOH403 2.6 34.5 1.0 O1B A:ADP301 2.7 38.4 1.0 OG1 A:THR15 2.9 36.7 1.0 O1A A:ADP301 3.5 39.0 1.0 CB A:THR15 3.8 33.4 1.0 CA A:GLY41 3.9 30.0 1.0 PB A:ADP301 3.9 36.0 1.0 O3B A:ADP301 4.2 40.6 1.0 OD2 A:ASP37 4.4 34.7 1.0 N A:GLY41 4.5 28.9 1.0 O3A A:ADP301 4.5 41.8 1.0 CG2 A:THR15 4.6 31.2 1.0 PA A:ADP301 4.6 41.1 1.0 O A:HOH404 4.7 30.7 1.0 C A:GLY41 5.0 30.6 1.0

Magnesium binding site 2 out of 4 in the Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna


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-Adp Complex Bound to Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg302 b:28.3 occ:1.00 O B:HOH401 1.9 27.7 1.0 O2B B:ADP301 2.2 36.7 1.0 OG1 B:THR15 2.2 33.1 1.0 O B:HOH403 2.3 35.7 1.0 O B:HOH402 2.9 29.8 1.0 PB B:ADP301 3.3 40.3 1.0 CB B:THR15 3.5 30.8 1.0 O3B B:ADP301 3.6 45.0 1.0 O1A B:ADP301 3.9 32.6 1.0 N B:THR15 4.0 31.5 1.0 OD2 B:ASP37 4.1 37.5 1.0 O B:HOH405 4.1 32.5 1.0 O1B B:ADP301 4.1 35.4 1.0 CA B:THR15 4.3 29.9 1.0 O B:HOH404 4.3 30.2 1.0 OD2 B:ASP105 4.5 25.4 1.0 CG2 B:THR15 4.5 26.9 1.0 O3A B:ADP301 4.5 35.5 1.0 PA B:ADP301 4.7 34.4 1.0 CB B:LYS14 4.8 30.2 1.0 CG B:ASP37 4.9 33.6 1.0 OD1 B:ASP105 5.0 30.4 1.0

Magnesium binding site 3 out of 4 in the Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna


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-Adp Complex Bound to Dna within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg302 b:26.9 occ:1.00 O C:HOH406 1.9 38.2 1.0 O C:HOH404 2.0 31.5 1.0 OG1 C:THR15 2.1 36.1 1.0 O C:HOH405 2.3 32.2 1.0 O2B C:ADP301 2.3 38.9 1.0 CB C:THR15 3.3 33.2 1.0 O C:HOH402 3.4 34.4 1.0 PB C:ADP301 3.5 40.2 1.0 O C:HOH403 3.5 34.1 1.0 OD2 C:ASP37 3.8 36.5 1.0 O3B C:ADP301 3.8 39.3 1.0 O2A C:ADP301 4.0 39.0 1.0 O C:HOH401 4.1 32.6 1.0 N C:THR15 4.2 37.0 1.0 CA C:THR15 4.3 35.9 1.0 CG2 C:THR15 4.3 27.9 1.0 OD2 C:ASP105 4.3 29.2 1.0 O1B C:ADP301 4.3 37.4 1.0 O3A C:ADP301 4.7 37.3 1.0 CG C:ASP37 4.8 34.1 1.0 PA C:ADP301 4.9 42.3 1.0 CA C:GLY41 4.9 30.0 1.0 CE C:LYS14 5.0 40.8 1.0

Magnesium binding site 4 out of 4 in the Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna


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-Adp Complex Bound to Dna within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg302 b:32.5 occ:1.00 O D:HOH402 1.9 28.6 1.0 O D:HOH401 1.9 40.4 1.0 O D:HOH403 2.0 35.2 1.0 O D:HOH406 2.6 31.6 1.0 O1B D:ADP301 2.8 36.9 1.0 OG1 D:THR15 3.0 31.3 1.0 OD2 D:ASP37 3.2 32.5 1.0 O3B D:ADP301 3.7 41.2 1.0 PB D:ADP301 3.7 35.5 1.0 CB D:THR15 4.2 32.8 1.0 CG D:ASP37 4.3 32.4 1.0 O2B D:ADP301 4.5 39.0 1.0 O1A D:ADP301 4.5 38.8 1.0 CE D:LYS14 4.5 38.5 1.0 O D:HOH404 4.7 27.6 1.0 O D:THR106 4.8 30.8 1.0 OD2 D:ASP105 4.8 26.9 1.0 N D:THR15 4.8 33.6 1.0 CA D:GLY41 4.8 24.2 1.0 OD1 D:ASP105 4.9 31.2 1.0 CB D:ASP37 5.0 30.7 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