Magnesium in PDB 7e1t: Crystal Structure of RAB9A-Gtp-NDE1

The structure of Crystal Structure of RAB9A-Gtp-NDE1, PDB code: 7e1t was solved by Y.Zhang, T.Zhang, J.Ding, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.75 / 2.45
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	67.421, 67.646, 118.516, 90, 90, 90
R / Rfree (%)	19.4 / 24.4

The binding sites of Magnesium atom in the Crystal Structure of RAB9A-Gtp-NDE1 (pdb code 7e1t). 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 RAB9A-Gtp-NDE1, PDB code: 7e1t:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of RAB9A-Gtp-NDE1


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 RAB9A-Gtp-NDE1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg301 b:25.4 occ:1.00 OG1 A:THR39 2.2 25.0 1.0 O2B A:GTP302 2.2 28.5 1.0 O A:HOH415 2.2 24.6 1.0 OG A:SER21 2.2 21.9 1.0 O3G A:GTP302 2.3 26.3 1.0 O A:HOH406 2.5 23.1 1.0 CB A:SER21 3.1 20.5 1.0 CB A:THR39 3.2 25.3 1.0 PG A:GTP302 3.5 29.3 1.0 PB A:GTP302 3.6 31.3 1.0 N A:THR39 3.6 28.2 1.0 OD2 A:ASP62 3.9 19.5 1.0 O3B A:GTP302 3.9 30.4 1.0 N A:SER21 4.0 21.0 1.0 CA A:THR39 4.0 27.9 1.0 O2G A:GTP302 4.0 25.4 1.0 CA A:SER21 4.1 21.1 1.0 O A:HOH418 4.1 34.1 1.0 O2A A:GTP302 4.1 30.3 1.0 OD1 A:ASP62 4.2 20.3 1.0 CG2 A:THR39 4.4 23.7 1.0 CG A:ASP62 4.5 18.3 1.0 O A:PHE37 4.5 34.0 1.0 O1B A:GTP302 4.6 23.3 1.0 O1A A:GTP302 4.6 27.4 1.0 C A:HIS38 4.6 30.7 1.0 O3A A:GTP302 4.6 28.6 1.0 PA A:GTP302 4.6 31.2 1.0 O A:THR63 4.7 27.4 1.0 O1G A:GTP302 4.8 27.1 1.0 CA A:HIS38 4.9 31.8 1.0 O A:HOH462 4.9 35.5 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of RAB9A-Gtp-NDE1


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 RAB9A-Gtp-NDE1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg301 b:34.8 occ:1.00 O1B B:GTP302 2.2 31.8 1.0 O B:HOH401 2.2 33.0 1.0 OG1 B:THR39 2.2 30.4 1.0 O3G B:GTP302 2.2 30.3 1.0 OG B:SER21 2.3 24.4 1.0 O B:HOH411 2.4 28.6 1.0 CB B:SER21 3.1 24.4 1.0 CB B:THR39 3.2 30.1 1.0 PG B:GTP302 3.5 31.8 1.0 PB B:GTP302 3.5 29.7 1.0 N B:THR39 3.7 30.0 1.0 N B:SER21 3.7 26.2 1.0 O3B B:GTP302 3.8 35.7 1.0 OD2 B:ASP62 3.9 25.1 1.0 CA B:SER21 3.9 24.6 1.0 O2A B:GTP302 4.0 39.8 1.0 OD1 B:ASP62 4.0 26.2 1.0 O1G B:GTP302 4.1 28.6 1.0 CA B:THR39 4.1 28.8 1.0 O B:HOH407 4.2 27.1 1.0 CG B:ASP62 4.3 24.2 1.0 O1A B:GTP302 4.4 33.3 1.0 CG2 B:THR39 4.4 27.9 1.0 O B:THR63 4.4 27.2 1.0 PA B:GTP302 4.5 38.7 1.0 O3A B:GTP302 4.5 34.5 1.0 O2B B:GTP302 4.6 30.8 1.0 C B:HIS38 4.8 32.5 1.0 O2G B:GTP302 4.8 35.6 1.0 O B:PHE37 4.8 31.6 1.0 C B:LYS20 4.8 25.2 1.0 CB B:LYS20 4.8 24.4 1.0 O B:HOH402 4.9 26.3 1.0

T.Zhang, J.Ding. Crystal Structure of RAB9A-Gtp-NDE1 To Be Published.