Magnesium in PDB 8oul: Arf Gtpase From the Asgard Hodarchaea : HODARFR1 Bound to Gdp

The structure of Arf Gtpase From the Asgard Hodarchaea : HODARFR1 Bound to Gdp, PDB code: 8oul was solved by J.Menetrey, C.Jackson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.47 / 3.10
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	75.693, 75.693, 189.306, 90, 90, 90
R / Rfree (%)	23.6 / 28.9

The binding sites of Magnesium atom in the Arf Gtpase From the Asgard Hodarchaea : HODARFR1 Bound to Gdp (pdb code 8oul). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Arf Gtpase From the Asgard Hodarchaea : HODARFR1 Bound to Gdp, PDB code: 8oul:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Arf Gtpase From the Asgard Hodarchaea : HODARFR1 Bound to Gdp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Arf Gtpase From the Asgard Hodarchaea : HODARFR1 Bound to Gdp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:55.5 occ:1.00 O2B A:GDP201 2.3 51.5 1.0 OG A:SER31 2.7 42.5 1.0 OD2 A:ASP68 3.3 65.2 1.0 PB A:GDP201 3.4 51.3 1.0 OD1 A:ASP68 3.4 63.9 1.0 O3B A:GDP201 3.4 51.7 1.0 CG A:ASP68 3.7 63.2 1.0 CB A:SER31 4.0 39.0 1.0 O3A A:GDP201 4.1 49.8 1.0 O2A A:GDP201 4.6 48.7 1.0 O1B A:GDP201 4.6 51.5 1.0 SG A:CYS66 4.7 56.2 1.0 PA A:GDP201 4.7 48.5 1.0 N A:SER31 4.8 35.4 1.0 O1A A:GDP201 4.8 47.9 1.0 OD2 A:ASP55 4.9 67.2 1.0 CA A:SER31 5.0 37.0 1.0

Magnesium binding site 2 out of 3 in the Arf Gtpase From the Asgard Hodarchaea : HODARFR1 Bound to Gdp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Arf Gtpase From the Asgard Hodarchaea : HODARFR1 Bound to Gdp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg202 b:35.7 occ:1.00 O2B B:GDP201 2.4 55.2 1.0 OG B:SER31 2.6 42.5 1.0 O B:HOH303 2.7 11.0 1.0 OD1 B:ASP68 3.3 68.8 1.0 PB B:GDP201 3.5 55.4 1.0 OD2 B:ASP68 3.5 70.0 1.0 O1B B:GDP201 3.5 55.0 1.0 SG B:CYS66 3.7 59.3 1.0 CG B:ASP68 3.8 68.0 1.0 CB B:SER31 4.0 41.0 1.0 CE B:LYS30 4.4 55.6 1.0 N B:SER31 4.4 41.6 1.0 O3B B:GDP201 4.5 56.0 1.0 NZ B:LYS30 4.5 56.3 1.0 O3A B:GDP201 4.6 55.4 1.0 O1A B:GDP201 4.6 55.8 1.0 CA B:SER31 4.7 40.7 1.0 CB B:LYS30 4.9 46.8 1.0 PA B:GDP201 4.9 55.7 1.0

Magnesium binding site 3 out of 3 in the Arf Gtpase From the Asgard Hodarchaea : HODARFR1 Bound to Gdp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Arf Gtpase From the Asgard Hodarchaea : HODARFR1 Bound to Gdp within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg202 b:53.9 occ:1.00 O2B C:GDP201 2.4 76.2 1.0 OG C:SER31 2.6 69.9 1.0 OD2 C:ASP68 3.0 81.1 1.0 O C:HOH301 3.0 11.7 1.0 OD1 C:ASP68 3.4 79.3 1.0 PB C:GDP201 3.5 76.0 1.0 CG C:ASP68 3.6 78.8 1.0 O1A C:GDP201 3.6 77.7 1.0 O1B C:GDP201 3.8 75.8 1.0 O3A C:GDP201 3.9 76.7 1.0 CB C:SER31 4.0 67.8 1.0 PA C:GDP201 4.2 77.4 1.0 O2A C:GDP201 4.7 77.2 1.0 SG C:CYS66 4.7 67.3 1.0 N C:SER31 4.8 65.8 1.0 O3B C:GDP201 4.9 74.8 1.0 OD2 C:ASP55 4.9 82.5 1.0 CA C:SER31 5.0 66.5 1.0

J.Menetrey, J.Menetrey, C.Jackson. N/A N/A.