Magnesium in PDB 6pq3: Crystal Structure of Gdp-Bound Kras with Ten Residues Long Internal Tandem Duplication in the Switch II Region

The structure of Crystal Structure of Gdp-Bound Kras with Ten Residues Long Internal Tandem Duplication in the Switch II Region, PDB code: 6pq3 was solved by S.Dharmaiah, A.H.Chan, T.H.Tran, D.K.Simanshu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.45 / 1.75
Space group	P 63
Cell size a, b, c (Å), α, β, γ (°)	82.900, 82.900, 41.130, 90.00, 90.00, 120.00
R / Rfree (%)	17.9 / 21.7

The binding sites of Magnesium atom in the Crystal Structure of Gdp-Bound Kras with Ten Residues Long Internal Tandem Duplication in the Switch II Region (pdb code 6pq3). 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 Crystal Structure of Gdp-Bound Kras with Ten Residues Long Internal Tandem Duplication in the Switch II Region, PDB code: 6pq3:

Magnesium binding site 1 out of 1 in the Crystal Structure of Gdp-Bound Kras with Ten Residues Long Internal Tandem Duplication in the Switch II Region


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Gdp-Bound Kras with Ten Residues Long Internal Tandem Duplication in the Switch II Region within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:27.6 occ:1.00 O A:HOH310 2.0 25.8 1.0 O1B A:GDP201 2.1 26.1 1.0 OG A:SER17 2.1 26.6 1.0 O A:HOH305 2.1 30.1 1.0 O A:HOH315 2.1 28.7 1.0 O A:HOH318 2.2 28.4 1.0 CB A:SER17 3.1 30.0 1.0 PB A:GDP201 3.3 25.8 1.0 O3B A:GDP201 3.5 25.5 1.0 N A:SER17 3.9 26.4 1.0 OD2 A:ASP57 4.0 36.0 1.0 O2A A:GDP201 4.0 27.4 1.0 CA A:SER17 4.0 26.7 1.0 OD1 A:ASP57 4.2 47.1 1.0 CA A:PRO34 4.3 32.5 1.0 O A:ASP33 4.3 31.1 1.0 O2B A:GDP201 4.3 24.1 1.0 O A:PRO34 4.4 32.8 1.0 O3A A:GDP201 4.4 24.8 1.0 O A:THR58 4.4 32.1 1.0 PA A:GDP201 4.5 28.0 1.0 O1A A:GDP201 4.5 30.9 1.0 CD2 A:TYR32 4.5 28.9 1.0 CG A:ASP57 4.5 40.2 1.0 O A:ILE36 4.6 30.2 1.0 C A:PRO34 4.7 36.9 1.0 O A:TYR32 4.7 29.8 1.0 CB A:LYS16 4.9 26.3 1.0 C A:LYS16 5.0 27.0 1.0

S.Dharmaiah, D.K.Simanshu. Ras Internal Tandem Duplication Disrupts Gtpase-Activating Protein (Gap) Binding to Activate Oncogenic Signaling J.Biol.Chem. 2020.
ISSN: ESSN 1083-351X