Magnesium in PDB 3kud: Complex of Ras-Gdp with Rafrbd(A85K)

All present enzymatic activity of Complex of Ras-Gdp with Rafrbd(A85K):
2.7.11.1;

The structure of Complex of Ras-Gdp with Rafrbd(A85K), PDB code: 3kud was solved by D.Filchtinski, O.Sharabi, A.Rueppel, I.R.Vetter, C.Herrmann, J.M.Shifman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.68 / 2.15
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	91.130, 91.130, 277.980, 90.00, 90.00, 120.00
R / Rfree (%)	23.7 / 26.4

The binding sites of Magnesium atom in the Complex of Ras-Gdp with Rafrbd(A85K) (pdb code 3kud). 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 Complex of Ras-Gdp with Rafrbd(A85K), PDB code: 3kud:

Magnesium binding site 1 out of 1 in the Complex of Ras-Gdp with Rafrbd(A85K)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Complex of Ras-Gdp with Rafrbd(A85K) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg171 b:39.7 occ:1.00 OG1 A:THR35 2.2 30.9 1.0 O A:HOH503 2.2 23.9 1.0 O A:HOH548 2.2 25.4 1.0 O2B A:GDP170 2.2 19.3 1.0 O A:HOH501 2.4 18.0 1.0 OG A:SER17 2.4 20.2 1.0 O3B A:GDP170 3.0 23.7 1.0 CB A:THR35 3.1 30.2 1.0 PB A:GDP170 3.1 23.0 1.0 O A:HOH500 3.2 17.8 1.0 N A:THR35 3.3 32.3 1.0 CB A:SER17 3.7 20.1 1.0 CA A:THR35 3.8 31.0 1.0 O1A A:GDP170 3.9 31.4 1.0 O A:ASP33 4.1 36.4 1.0 O1B A:GDP170 4.1 25.6 1.0 O3A A:GDP170 4.1 27.5 1.0 C A:PRO34 4.2 33.7 1.0 CA A:PRO34 4.3 34.5 1.0 N A:SER17 4.3 21.4 1.0 OD2 A:ASP57 4.3 37.6 1.0 CG2 A:THR35 4.3 27.7 1.0 PA A:GDP170 4.5 27.3 1.0 O A:THR58 4.6 29.7 1.0 CA A:SER17 4.6 22.4 1.0 O2A A:GDP170 4.7 29.2 1.0 OD1 A:ASP57 4.8 35.9 1.0 C A:THR35 4.9 31.3 1.0 NZ A:LYS16 4.9 17.3 1.0 C A:ASP33 4.9 37.2 1.0 O A:THR35 5.0 30.6 1.0

D.Filchtinski, O.Sharabi, A.Ruppel, I.R.Vetter, C.Herrmann, J.M.Shifman. What Makes Ras An Efficient Molecular Switch: A Computational, Biophysical, and Structural Study of Ras-Gdp Interactions with Mutants of Raf. J.Mol.Biol. V. 399 422 2010.
ISSN: ISSN 0022-2836
PubMed: 20361980
DOI: 10.1016/J.JMB.2010.03.046