Magnesium in PDB 6yr8: Affimer K6 - Kras Protein Complex

The structure of Affimer K6 - Kras Protein Complex, PDB code: 6yr8 was solved by C.H.Trinh, K.Z.Haza, A.Rao, H.L.Martin, C.Tiede, T.A.Edwards, M.J.Mcpherson, D.C.Tomlinson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	64.13 / 1.90
Space group	I 41
Cell size a, b, c (Å), α, β, γ (°)	71.574, 71.574, 144.390, 90.00, 90.00, 90.00
R / Rfree (%)	21.1 / 24.7

The binding sites of Magnesium atom in the Affimer K6 - Kras Protein Complex (pdb code 6yr8). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Affimer K6 - Kras Protein Complex, PDB code: 6yr8:

Magnesium binding site 1 out of 1 in the Affimer K6 - Kras Protein Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Affimer K6 - Kras Protein Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:61.6 occ:1.00 OG A:SER17 2.0 52.2 1.0 O A:HOH301 2.0 57.2 1.0 O A:HOH333 2.0 53.7 1.0 O A:HOH316 2.1 52.7 1.0 O3B A:GDP201 2.1 61.7 1.0 O A:HOH320 2.2 60.9 1.0 CB A:SER17 3.1 53.3 1.0 PB A:GDP201 3.4 64.6 1.0 O1B A:GDP201 3.8 64.7 1.0 N A:SER17 3.8 55.3 1.0 OD2 A:ASP57 3.9 56.0 1.0 CA A:SER17 3.9 52.9 1.0 OD1 A:ASP57 4.0 53.2 1.0 O A:ASP33 4.2 60.7 1.0 O1A A:GDP201 4.3 65.5 1.0 CG A:ASP57 4.3 55.1 1.0 O A:THR58 4.3 57.4 1.0 O2B A:GDP201 4.4 64.5 1.0 CD2 A:TYR32 4.4 61.9 1.0 O A:ILE36 4.4 51.8 1.0 O3A A:GDP201 4.5 63.9 1.0 O A:PRO34 4.6 60.1 1.0 CB A:LYS16 4.7 53.6 1.0 PA A:GDP201 4.7 64.5 1.0 CE2 A:TYR32 4.7 63.0 1.0 CA A:PRO34 4.7 63.9 1.0 O2A A:GDP201 4.8 66.7 1.0 NZ A:LYS16 4.8 61.3 1.0 C A:PRO34 4.8 60.9 1.0 C A:LYS16 4.9 54.0 1.0 CE A:LYS16 4.9 57.6 1.0

K.Z.Haza, H.L.Martin, A.Rao, A.Turner, S.E.Saunders, B.Petersen, C.Tiede, K.Tipping, M.Ajayi, K.M.Fishwick, T.L.Adams, C.H.Trinh, A.L.Breeze, T.A.Edwards, M.J.Mcpherson, D.C.Tomlinson. Ras-Inhibiting Biologics Identify and Probe Druggable Pockets Including An Sii-ALPHA3 Allosteric Site Biorxiv 2020.
DOI: 10.1101/2020.06.04.133728