Magnesium in PDB 9drz: Structure of Lichtheimia Corymbifera Kinase in Complex with Gdp and Mg

The structure of Structure of Lichtheimia Corymbifera Kinase in Complex with Gdp and Mg, PDB code: 9drz was solved by G.M.Wimberly-Gard, S.Shuman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.46 / 2.70
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	120.469, 120.469, 166.733, 90, 90, 120
R / Rfree (%)	22.1 / 28

The binding sites of Magnesium atom in the Structure of Lichtheimia Corymbifera Kinase in Complex with Gdp and Mg (pdb code 9drz). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Structure of Lichtheimia Corymbifera Kinase in Complex with Gdp and Mg, PDB code: 9drz:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Structure of Lichtheimia Corymbifera Kinase in Complex with Gdp and Mg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Lichtheimia Corymbifera Kinase in Complex with Gdp and Mg within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:47.9 occ:1.00 O A:HOH304 2.0 44.9 1.0 O A:HOH302 2.0 49.7 1.0 O2B A:GDP201 2.0 45.2 1.0 OG A:SER17 2.0 54.1 1.0 O A:HOH305 2.0 41.3 1.0 O A:HOH307 2.0 44.4 1.0 PB A:GDP201 3.1 50.8 1.0 CB A:SER17 3.2 51.2 1.0 O1B A:GDP201 3.2 45.0 1.0 N A:SER17 4.0 50.5 1.0 OD2 A:ASP61 4.1 54.2 1.0 O3A A:GDP201 4.1 55.9 1.0 O2A A:GDP201 4.1 53.8 1.0 OD1 A:ASP61 4.1 64.1 1.0 CA A:SER17 4.2 50.6 1.0 O3B A:GDP201 4.3 57.7 1.0 PA A:GDP201 4.4 52.0 1.0 O1A A:GDP201 4.5 45.5 1.0 CG A:ASP61 4.5 57.0 1.0 O C:ASP36 4.6 63.3 1.0 OD2 A:ASP36 4.9 81.9 1.0

Magnesium binding site 2 out of 3 in the Structure of Lichtheimia Corymbifera Kinase in Complex with Gdp and Mg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Lichtheimia Corymbifera Kinase in Complex with Gdp and Mg within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg202 b:49.2 occ:1.00 O B:HOH303 2.0 40.3 1.0 OG B:SER17 2.0 50.5 1.0 O3B B:GDP201 2.0 46.5 1.0 O B:HOH304 2.0 41.7 1.0 O B:HOH301 2.0 44.2 1.0 O B:HOH302 2.0 43.2 1.0 CB B:SER17 3.3 49.4 1.0 PB B:GDP201 3.3 51.1 1.0 O1B B:GDP201 3.7 53.2 1.0 OD2 B:ASP61 4.1 60.4 1.0 O2B B:GDP201 4.2 45.7 1.0 OD1 B:ASP61 4.2 55.1 1.0 N B:SER17 4.2 48.2 1.0 CA B:SER17 4.3 48.2 1.0 O2A B:GDP201 4.4 46.0 1.0 O3A B:GDP201 4.5 49.0 1.0 ND2 B:ASN34 4.6 60.9 1.0 CG B:ASP61 4.6 56.6 1.0 OD2 B:ASP36 4.8 73.3 1.0 PA B:GDP201 4.8 52.7 1.0 NH2 B:ARG32 4.9 69.1 1.0 O1A B:GDP201 4.9 55.3 1.0

Magnesium binding site 3 out of 3 in the Structure of Lichtheimia Corymbifera Kinase in Complex with Gdp and Mg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Lichtheimia Corymbifera Kinase in Complex with Gdp and Mg within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg202 b:51.7 occ:1.00 O C:HOH302 2.0 44.2 1.0 O C:HOH303 2.0 44.8 1.0 OG C:SER17 2.0 59.2 1.0 O2B C:GDP201 2.0 44.1 1.0 O C:HOH304 2.0 41.5 1.0 O C:HOH301 2.0 53.3 1.0 CB C:SER17 2.9 57.1 1.0 PB C:GDP201 3.2 47.4 1.0 O1B C:GDP201 3.5 51.3 1.0 O2A C:GDP201 3.8 53.7 1.0 N C:SER17 4.0 55.5 1.0 CA C:SER17 4.1 55.0 1.0 OD2 C:ASP61 4.2 58.4 1.0 O3B C:GDP201 4.2 48.9 1.0 O3A C:GDP201 4.3 51.0 1.0 OD1 C:ASP61 4.4 58.9 1.0 PA C:GDP201 4.4 52.4 1.0 OD2 C:ASP36 4.5 73.0 1.0 O1A C:GDP201 4.6 52.4 1.0 O A:ASP36 4.7 58.0 1.0 CG C:ASP61 4.7 61.6 1.0 ND2 C:ASN34 4.8 65.6 1.0 NZ C:LYS16 5.0 64.7 1.0 O C:HOH305 5.0 22.8 1.0

G.M.Wimberly-Gard, S.Shuman. Structure of Lichtheimia Corymbifera Kinase in Complex with Gdp and Mg To Be Published.