Magnesium in PDB 6y7g: Structure of the Human RAB3C in Complex with Gdp

The structure of Structure of the Human RAB3C in Complex with Gdp, PDB code: 6y7g was solved by L.Diaz-Saez, S.Jung, B.Raux, N.A.Burgess-Brown, F.Von Delft, C.H.Arrowsmith, A.Edwards, C.Bountra, K.V.M.Huber, Structural Genomicsconsortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	63.78 / 2.30
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	40.19, 40.434, 66.362, 86.02, 74.16, 66.45
R / Rfree (%)	20 / 29

The binding sites of Magnesium atom in the Structure of the Human RAB3C in Complex with Gdp (pdb code 6y7g). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of the Human RAB3C in Complex with Gdp, PDB code: 6y7g:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of the Human RAB3C in Complex with Gdp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the Human RAB3C in Complex with Gdp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg303 b:44.0 occ:1.00 O A:HOH407 2.0 34.4 1.0 O A:HOH404 2.1 38.9 1.0 O A:HOH406 2.1 36.8 1.0 OG1 A:THR44 2.2 36.6 1.0 O1B A:GDP301 2.3 34.6 1.0 CB A:THR44 3.4 39.1 1.0 PB A:GDP301 3.4 37.8 1.0 O2B A:GDP301 3.5 34.5 1.0 OD2 A:ASP85 4.1 43.4 1.0 O1A A:GDP301 4.2 42.5 1.0 CG2 A:THR44 4.2 38.6 1.0 OD1 A:ASP85 4.2 38.9 1.0 N A:THR44 4.3 38.0 1.0 O A:HOH424 4.4 60.3 1.0 CA A:THR44 4.4 38.8 1.0 O3B A:GDP301 4.5 33.1 1.0 CG A:ASP85 4.5 39.4 1.0 O3A A:GDP301 4.6 39.1 1.0 O A:HOH413 4.7 49.0 1.0 O A:HOH429 4.7 42.9 1.0 PA A:GDP301 4.8 43.2 1.0 CE A:LYS43 5.0 44.6 1.0

Magnesium binding site 2 out of 2 in the Structure of the Human RAB3C in Complex with Gdp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of the Human RAB3C in Complex with Gdp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg303 b:43.8 occ:1.00 OG1 B:THR44 1.9 38.4 1.0 O3B B:GDP301 2.0 29.6 1.0 O B:HOH413 2.2 29.4 1.0 O B:HOH405 2.2 51.5 1.0 O B:HOH401 2.3 28.7 1.0 CB B:THR44 3.1 38.4 1.0 PB B:GDP301 3.3 32.2 1.0 O2B B:GDP301 3.5 35.3 1.0 N B:THR44 3.8 35.0 1.0 OD2 B:ASP85 3.9 42.8 1.0 O2A B:GDP301 4.0 35.9 1.0 CA B:THR44 4.0 38.1 1.0 CG2 B:THR44 4.1 36.4 1.0 OD1 B:ASP85 4.2 38.1 1.0 O1B B:GDP301 4.3 29.8 1.0 O3A B:GDP301 4.4 35.1 1.0 CG B:ASP85 4.4 39.5 1.0 O B:THR86 4.4 47.1 1.0 PA B:GDP301 4.5 37.5 1.0 O B:HOH424 4.6 34.3 1.0 O1A B:GDP301 4.6 36.9 1.0 CB B:LYS43 4.8 33.0 1.0 C B:LYS43 4.9 32.9 1.0

L.Diaz-Saez, S.Jung, N.A.Burgess-Brown, F.Von Delft, C.H.Arrowsmith, A.Edwards, C.Bountra, K.V.M.Huber. Structure of the Human RAB3C in Complex with Gdp To Be Published.