Magnesium in PDB 2ht6: Crystal Structure of Human Gem G-Domain Bound to Gdp

The structure of Crystal Structure of Human Gem G-Domain Bound to Gdp, PDB code: 2ht6 was solved by Y.Opatowsky, J.A.Hirsch, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.40
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	39.843, 81.433, 124.095, 90.00, 90.00, 90.00
R / Rfree (%)	22.6 / 28.7

The binding sites of Magnesium atom in the Crystal Structure of Human Gem G-Domain Bound to Gdp (pdb code 2ht6). 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 Human Gem G-Domain Bound to Gdp, PDB code: 2ht6:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Human Gem G-Domain Bound to 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 Human Gem G-Domain Bound to Gdp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg344 b:39.6 occ:1.00 O A:HOH884 2.0 40.6 1.0 OG A:SER89 2.1 34.6 1.0 O3B A:GDP545 2.1 41.2 1.0 O A:HOH874 2.1 41.4 1.0 O A:HOH834 2.2 31.9 1.0 O A:HOH808 2.3 30.6 1.0 PB A:GDP545 3.3 39.1 1.0 CB A:SER89 3.3 34.2 1.0 O2B A:GDP545 3.4 41.6 1.0 N A:SER89 4.0 33.5 1.0 O1A A:GDP545 4.0 40.3 1.0 OE1 A:GLU134 4.0 65.5 1.0 O A:HOH831 4.2 48.2 1.0 CA A:SER89 4.2 34.3 1.0 O1B A:GDP545 4.2 41.7 1.0 OD2 A:ASP131 4.2 38.4 1.0 OD1 A:ASP131 4.3 39.4 1.0 O3A A:GDP545 4.4 41.6 1.0 PA A:GDP545 4.6 39.4 1.0 CG A:ASP131 4.7 38.8 1.0 O2A A:GDP545 4.9 40.5 1.0 CB A:LYS88 4.9 31.8 1.0 CD A:GLU134 4.9 64.2 1.0 OE2 A:GLU134 4.9 66.1 1.0 NZ A:LYS88 5.0 32.8 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Human Gem G-Domain Bound to 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 Human Gem G-Domain Bound to Gdp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg444 b:44.1 occ:1.00 OG B:SER89 2.1 35.1 1.0 O B:HOH822 2.1 29.7 1.0 O3B B:GDP645 2.2 33.9 1.0 O B:HOH821 2.3 37.2 1.0 CB B:SER89 3.1 34.3 1.0 PB B:GDP645 3.4 34.9 1.0 O2B B:GDP645 3.6 36.6 1.0 N B:SER89 3.8 33.7 1.0 OD1 B:ASP131 4.0 40.4 1.0 CA B:SER89 4.0 34.4 1.0 O1A B:GDP645 4.1 34.8 1.0 OD2 B:ASP131 4.3 36.4 1.0 O1B B:GDP645 4.3 34.9 1.0 O3A B:GDP645 4.5 34.3 1.0 CG B:ASP131 4.5 38.7 1.0 O B:HOH878 4.6 34.6 1.0 PA B:GDP645 4.7 36.2 1.0 O2A B:GDP645 4.9 35.7 1.0 C B:LYS88 4.9 33.1 1.0 CB B:LYS88 4.9 32.0 1.0

Y.Opatowsky, Y.Sasson, I.Shaked, Y.Ward, O.Chomsky-Hecht, Y.Litvak, Z.Selinger, K.Kelly, J.A.Hirsch. Structure-Function Studies of the G-Domain From Human Gem, A Novel Small G-Protein. Febs Lett. V. 580 5959 2006.
ISSN: ISSN 0014-5793
PubMed: 17052716
DOI: 10.1016/J.FEBSLET.2006.09.067