Magnesium in PDB 1kao: Crystal Structure of the Small G Protein RAP2A with Gdp

The structure of Crystal Structure of the Small G Protein RAP2A with Gdp, PDB code: 1kao was solved by J.Cherfils, J.Menetrey, G.Le Bras, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	N/A / 1.70
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	36.826, 35.315, 58.356, 90.00, 106.67, 90.00
R / Rfree (%)	18.6 / n/a

The binding sites of Magnesium atom in the Crystal Structure of the Small G Protein RAP2A with Gdp (pdb code 1kao). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of the Small G Protein RAP2A with Gdp, PDB code: 1kao:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of the Small G Protein RAP2A with Gdp


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 the Small G Protein RAP2A with Gdp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg168 b:7.0 occ:1.00 O A:HOH173 1.9 6.3 1.0 OG A:SER17 2.0 7.8 1.0 O A:HOH171 2.1 8.9 1.0 O3B A:GDP170 2.1 2.5 1.0 O A:HOH174 2.1 12.3 1.0 O A:HOH172 2.2 6.9 1.0 CB A:SER17 3.1 5.6 1.0 PB A:GDP170 3.3 3.7 1.0 O1B A:GDP170 3.5 8.0 1.0 N A:SER17 4.0 3.8 1.0 OD2 A:ASP57 4.0 7.6 1.0 CA A:SER17 4.1 4.6 1.0 OD1 A:ASP57 4.1 8.3 1.0 O1A A:GDP170 4.3 11.3 1.0 O A:THR58 4.3 11.5 1.0 O2B A:GDP170 4.3 5.5 1.0 O3A A:GDP170 4.3 9.2 1.0 CG A:ASP57 4.5 8.2 1.0 PA A:GDP170 4.6 5.5 1.0 CD2 A:TYR32 4.6 30.2 1.0 CE A:LYS16 4.7 2.9 1.0 O2A A:GDP170 4.7 3.3 1.0 CB A:LYS16 4.8 4.8 1.0 CA A:PRO34 4.8 35.6 1.0 O A:ASP33 4.8 31.6 1.0 O A:TYR32 4.9 35.5 1.0 NZ A:LYS16 4.9 4.8 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of the Small G Protein RAP2A with Gdp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of the Small G Protein RAP2A with Gdp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg169 b:22.9 occ:1.00 O A:HOH227 1.7 23.3 1.0 O A:HOH239 1.7 49.8 1.0 OD1 A:ASP38 2.5 17.1 1.0 O A:HOH240 3.0 36.3 1.0 CG A:ASP38 3.7 16.5 1.0 OH A:TYR32 4.3 28.8 1.0 O A:HOH226 4.4 26.9 1.0 O A:HOH184 4.5 13.6 1.0 OD2 A:ASP38 4.5 15.6 1.0 CB A:ASP38 4.6 12.4 1.0 O A:GLU37 4.7 19.0 1.0 CG2 A:ILE36 4.7 32.6 1.0 CA A:ASP38 4.9 12.7 1.0

J.Cherfils, J.Menetrey, G.Le Bras, I.Janoueix-Lerosey, J.De Gunzburg, J.R.Garel, I.Auzat. Crystal Structures of the Small G Protein RAP2A in Complex with Its Substrate Gtp, with Gdp and with Gtpgammas. Embo J. V. 16 5582 1997.
ISSN: ISSN 0261-4189
PubMed: 9312017
DOI: 10.1093/EMBOJ/16.18.5582