Magnesium in PDB 4kvg: Crystal Structure of Riam Ra-pH Domains in Complex with Gtp Bound RAP1

The structure of Crystal Structure of Riam Ra-pH Domains in Complex with Gtp Bound RAP1, PDB code: 4kvg was solved by H.Zhang, Y.E.Chang, M.L.Brennan, J.Wu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.82 / 1.65
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	82.467, 85.848, 160.852, 90.00, 90.00, 90.00
R / Rfree (%)	19.7 / 21.9

The binding sites of Magnesium atom in the Crystal Structure of Riam Ra-pH Domains in Complex with Gtp Bound RAP1 (pdb code 4kvg). 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 Riam Ra-pH Domains in Complex with Gtp Bound RAP1, PDB code: 4kvg:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Riam Ra-pH Domains in Complex with Gtp Bound RAP1


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 Riam Ra-pH Domains in Complex with Gtp Bound RAP1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:15.2 occ:1.00 O1G A:GTP201 1.9 17.4 1.0 O1B A:GTP201 2.0 15.5 1.0 OG A:SER17 2.1 16.4 1.0 O A:HOH413 2.1 16.3 1.0 OG1 A:THR35 2.1 18.1 1.0 O A:HOH412 2.1 14.7 1.0 CB A:THR35 3.1 18.9 1.0 CB A:SER17 3.2 16.4 1.0 PG A:GTP201 3.2 17.1 1.0 PB A:GTP201 3.2 16.1 1.0 O3B A:GTP201 3.4 16.7 1.0 N A:THR35 3.9 20.9 1.0 N A:SER17 3.9 15.2 1.0 O2G A:GTP201 4.0 17.6 1.0 OD2 A:ASP57 4.0 20.2 1.0 CA A:SER17 4.1 15.6 1.0 CA A:THR35 4.1 20.1 1.0 CG2 A:THR35 4.2 18.2 1.0 O2A A:GTP201 4.2 17.3 1.0 OD1 A:ASP57 4.2 19.7 1.0 O A:HOH309 4.2 19.5 1.0 O3A A:GTP201 4.2 16.4 1.0 O3G A:GTP201 4.3 18.0 1.0 O2B A:GTP201 4.3 15.7 1.0 O A:ASP33 4.4 23.1 1.0 PA A:GTP201 4.5 16.8 1.0 O A:THR58 4.5 18.2 1.0 CG A:ASP57 4.5 19.3 1.0 O1A A:GTP201 4.6 16.3 1.0 O A:HOH307 4.7 22.3 1.0 CB A:LYS16 4.8 14.7 1.0 C A:PRO34 4.9 22.6 1.0 CE A:LYS16 5.0 16.0 1.0 C A:LYS16 5.0 14.8 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Riam Ra-pH Domains in Complex with Gtp Bound RAP1


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 Riam Ra-pH Domains in Complex with Gtp Bound RAP1 within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg202 b:24.8 occ:1.00 O C:HOH332 1.8 24.6 1.0 O1G C:GTP201 1.9 31.6 1.0 O2B C:GTP201 2.0 29.8 1.0 O C:HOH333 2.0 28.2 1.0 OG1 C:THR35 2.1 31.1 1.0 OG C:SER17 2.1 30.3 1.0 CB C:THR35 3.1 32.3 1.0 PG C:GTP201 3.2 31.8 1.0 PB C:GTP201 3.2 31.2 1.0 CB C:SER17 3.2 31.1 1.0 O3B C:GTP201 3.4 31.0 1.0 N C:SER17 3.9 30.4 1.0 N C:THR35 3.9 37.0 1.0 O2G C:GTP201 3.9 29.5 1.0 CA C:THR35 4.1 34.2 1.0 OD2 C:ASP57 4.1 29.7 1.0 CA C:SER17 4.1 29.8 1.0 CG2 C:THR35 4.1 30.0 1.0 O2A C:GTP201 4.2 33.2 1.0 OD1 C:ASP57 4.2 30.8 1.0 O1B C:GTP201 4.2 30.1 1.0 O3A C:GTP201 4.3 31.6 1.0 O C:HOH304 4.3 29.1 1.0 O3G C:GTP201 4.3 31.5 1.0 O C:ASP33 4.5 42.4 1.0 O C:THR58 4.5 33.5 1.0 PA C:GTP201 4.5 33.7 1.0 CG C:ASP57 4.5 29.1 1.0 O1A C:GTP201 4.6 32.4 1.0 CB C:LYS16 4.8 31.8 1.0 C C:PRO34 4.9 40.0 1.0 C C:LYS16 4.9 29.9 1.0 CE C:LYS16 5.0 36.1 1.0

H.Zhang, Y.C.Chang, M.L.Brennan, J.Wu. The Structure of RAP1 in Complex with Riam Reveals Specificity Determinants and Recruitment Mechanism. J Mol Cell Biol V. 6 128 2014.
ISSN: ISSN 1674-2788
PubMed: 24287201
DOI: 10.1093/JMCB/MJT044