Magnesium in PDB 4d6p: Rada C-Terminal Atpase Domain From Pyrococcus Furiosus Bound to Amppnp

The structure of Rada C-Terminal Atpase Domain From Pyrococcus Furiosus Bound to Amppnp, PDB code: 4d6p was solved by M.E.Marsh, M.T.Ehebauer, D.Scott, C.Abell, T.L.Blundell, M.Hyvonen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.441 / 1.48
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	40.454, 87.420, 62.226, 90.00, 91.46, 90.00
R / Rfree (%)	19.03 / 23.9

The binding sites of Magnesium atom in the Rada C-Terminal Atpase Domain From Pyrococcus Furiosus Bound to Amppnp (pdb code 4d6p). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Rada C-Terminal Atpase Domain From Pyrococcus Furiosus Bound to Amppnp, PDB code: 4d6p:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Rada C-Terminal Atpase Domain From Pyrococcus Furiosus Bound to Amppnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rada C-Terminal Atpase Domain From Pyrococcus Furiosus Bound to Amppnp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1352 b:9.4 occ:1.00 O A:HOH2044 2.0 9.3 1.0 O1G A:ANP1350 2.1 12.3 1.0 O A:HOH2043 2.1 9.1 1.0 O1B A:ANP1350 2.1 9.9 1.0 OG1 A:THR145 2.1 9.3 1.0 O A:HOH2045 2.2 10.9 1.0 CB A:THR145 3.1 10.4 1.0 PG A:ANP1350 3.3 11.8 1.0 PB A:ANP1350 3.3 10.9 1.0 N3B A:ANP1350 3.6 8.8 1.0 O A:HOH2104 4.0 21.6 1.0 O A:HOH2304 4.0 12.5 1.0 N A:THR145 4.0 9.2 1.0 O2G A:ANP1350 4.1 12.7 1.0 O1A A:ANP1350 4.1 14.0 1.0 OD1 A:ASP238 4.1 10.8 1.0 CA A:THR145 4.2 9.1 1.0 CG2 A:THR145 4.2 11.4 1.0 OD2 A:ASP238 4.2 8.8 1.0 O A:HOH2105 4.2 31.1 1.0 O2B A:ANP1350 4.3 11.9 1.0 O3A A:ANP1350 4.4 10.3 1.0 OG1 A:THR176 4.4 10.8 1.0 O A:HOH2064 4.4 20.4 1.0 O3G A:ANP1350 4.4 12.5 1.0 PA A:ANP1350 4.6 11.7 1.0 CG A:ASP238 4.6 8.9 1.0 O2A A:ANP1350 4.8 11.5 1.0 CB A:LYS144 4.9 8.2 1.0 CB A:THR176 4.9 10.6 1.0 CG2 A:THR176 5.0 13.3 1.0

Magnesium binding site 2 out of 2 in the Rada C-Terminal Atpase Domain From Pyrococcus Furiosus Bound to Amppnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Rada C-Terminal Atpase Domain From Pyrococcus Furiosus Bound to Amppnp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1352 b:10.5 occ:1.00 OG1 B:THR145 1.9 8.9 1.0 O1G B:ANP1351 2.0 13.5 1.0 O B:HOH2043 2.0 9.9 1.0 O B:HOH2042 2.0 13.3 1.0 O B:HOH2044 2.1 8.7 1.0 O1B B:ANP1351 2.2 8.6 1.0 CB B:THR145 3.1 9.4 1.0 PG B:ANP1351 3.3 13.1 1.0 PB B:ANP1351 3.4 10.4 1.0 N3B B:ANP1351 3.6 9.0 1.0 N B:THR145 4.0 6.9 1.0 OD1 B:ASP238 4.0 9.7 1.0 O1A B:ANP1351 4.0 13.8 1.0 CG2 B:THR145 4.0 10.9 1.0 O B:HOH2286 4.1 12.3 1.0 CA B:THR145 4.1 9.4 1.0 OD2 B:ASP238 4.1 9.9 1.0 O2G B:ANP1351 4.1 13.1 1.0 O B:HOH2085 4.1 21.4 1.0 O B:HOH2057 4.2 23.2 1.0 OG1 B:THR176 4.3 11.6 1.0 O3A B:ANP1351 4.3 10.4 1.0 O B:HOH2084 4.4 14.3 1.0 O3G B:ANP1351 4.4 15.4 1.0 O2B B:ANP1351 4.5 11.1 1.0 CG B:ASP238 4.5 8.5 1.0 PA B:ANP1351 4.6 11.2 1.0 O2A B:ANP1351 4.8 13.1 1.0 CB B:THR176 4.9 11.5 1.0 CB B:LYS144 4.9 7.8 1.0 O B:HOH2285 5.0 22.7 1.0

M.E.Marsh, D.Scott, M.T.Ehebauer, C.Abell, T.L.Blundell, M.Hyvonen. Pyrococcus Furiosus Rada Atp-Half Site Binds Nucleotides To Be Published.