Magnesium in PDB 6gvc: Structure of ARHGAP12 Bound to G-Actin

The structure of Structure of ARHGAP12 Bound to G-Actin, PDB code: 6gvc was solved by S.Mouilleron, R.Treisman, J.Diring, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	54.13 / 2.60
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	101.650, 130.240, 109.300, 90.00, 111.17, 90.00
R / Rfree (%)	20.7 / 25.1

The binding sites of Magnesium atom in the Structure of ARHGAP12 Bound to G-Actin (pdb code 6gvc). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structure of ARHGAP12 Bound to G-Actin, PDB code: 6gvc:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Structure of ARHGAP12 Bound to G-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of ARHGAP12 Bound to G-Actin within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg404 b:39.5 occ:1.00 O2B B:ATP403 2.2 38.7 1.0 O2G B:ATP403 2.3 38.5 1.0 O B:HOH522 2.6 57.4 1.0 PG B:ATP403 3.5 40.7 1.0 PB B:ATP403 3.6 38.6 1.0 O3B B:ATP403 3.9 39.5 1.0 O3G B:ATP403 4.0 43.1 1.0 OD1 B:ASP11 4.0 51.3 1.0 NZ B:LYS18 4.2 33.1 1.0 O B:HOH501 4.2 40.4 1.0 OE1 B:GLN137 4.3 45.3 1.0 O2A B:ATP403 4.3 39.3 1.0 CD B:GLN137 4.4 43.5 1.0 O3A B:ATP403 4.4 39.2 1.0 OD2 B:ASP11 4.4 51.2 1.0 OD1 B:ASP154 4.5 53.0 1.0 CA B:GLY13 4.5 42.2 1.0 O B:HOH515 4.5 34.3 1.0 CG B:ASP11 4.6 49.5 1.0 NE2 B:GLN137 4.7 44.3 1.0 O1B B:ATP403 4.7 36.1 1.0 CG B:GLN137 4.8 40.6 1.0 O1G B:ATP403 4.8 42.9 1.0 PA B:ATP403 4.9 40.2 1.0 CG2 B:VAL339 5.0 41.1 1.0 OD2 B:ASP154 5.0 53.1 1.0

Magnesium binding site 2 out of 4 in the Structure of ARHGAP12 Bound to G-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of ARHGAP12 Bound to G-Actin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg404 b:45.0 occ:1.00 O2B A:ATP403 2.0 45.0 1.0 O A:HOH515 2.1 45.3 1.0 O A:HOH520 2.1 45.9 1.0 O2G A:ATP403 2.2 46.3 1.0 O A:HOH507 2.2 42.8 1.0 O A:HOH521 2.2 49.6 1.0 PB A:ATP403 3.3 43.4 1.0 PG A:ATP403 3.4 47.0 1.0 O3B A:ATP403 3.8 45.1 1.0 O3A A:ATP403 3.8 43.3 1.0 O1A A:ATP403 4.0 43.3 1.0 O3G A:ATP403 4.0 47.6 1.0 NZ A:LYS18 4.1 40.0 1.0 OD1 A:ASP11 4.2 52.2 1.0 PA A:ATP403 4.4 41.9 1.0 OD1 A:ASP154 4.4 56.0 1.0 CA A:GLY13 4.5 44.6 1.0 O1B A:ATP403 4.5 41.8 1.0 OE1 A:GLN137 4.6 34.9 1.0 OD2 A:ASP11 4.7 51.6 1.0 O1G A:ATP403 4.7 47.9 1.0 CD A:GLN137 4.8 35.8 1.0 CA A:GLY156 4.9 43.1 1.0 CG A:ASP11 4.9 51.3 1.0

Magnesium binding site 3 out of 4 in the Structure of ARHGAP12 Bound to G-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of ARHGAP12 Bound to G-Actin within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg404 b:47.3 occ:1.00 O2B C:ATP403 2.0 47.5 1.0 O C:HOH524 2.0 47.0 1.0 O C:HOH517 2.1 49.3 1.0 O C:HOH508 2.3 29.7 1.0 O C:HOH503 2.5 36.1 1.0 O2G C:ATP403 2.5 47.5 1.0 PB C:ATP403 3.4 47.9 1.0 PG C:ATP403 3.6 49.0 1.0 OD1 C:ASP11 3.8 45.7 1.0 NZ C:LYS18 3.9 39.4 1.0 O3B C:ATP403 3.9 48.7 1.0 O2A C:ATP403 4.0 45.6 1.0 O3G C:ATP403 4.1 49.7 1.0 OE1 C:GLN137 4.3 38.6 1.0 O3A C:ATP403 4.3 47.1 1.0 OD2 C:ASP11 4.4 45.6 1.0 CA C:GLY13 4.5 53.8 1.0 O1B C:ATP403 4.5 47.9 1.0 CG C:ASP11 4.5 45.7 1.0 CD C:GLN137 4.6 38.8 1.0 OD1 C:ASP154 4.7 44.7 1.0 PA C:ATP403 4.7 45.5 1.0 O1G C:ATP403 4.9 49.7 1.0 CG2 C:VAL339 5.0 32.6 1.0

Magnesium binding site 4 out of 4 in the Structure of ARHGAP12 Bound to G-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of ARHGAP12 Bound to G-Actin within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg404 b:43.8 occ:1.00 O D:HOH509 2.0 44.6 1.0 O2B D:ATP403 2.1 45.4 1.0 O D:HOH505 2.3 41.6 1.0 O D:HOH502 2.4 36.8 1.0 O3G D:ATP403 2.5 47.6 1.0 PB D:ATP403 3.5 45.1 1.0 O2A D:ATP403 3.6 47.5 1.0 PG D:ATP403 3.7 47.7 1.0 OD1 D:ASP11 3.9 49.6 1.0 O3B D:ATP403 4.0 46.9 1.0 O3A D:ATP403 4.3 47.8 1.0 NZ D:LYS18 4.3 39.5 1.0 O1G D:ATP403 4.3 48.3 1.0 PA D:ATP403 4.4 47.5 1.0 OE1 D:GLN137 4.5 38.8 1.0 OD1 D:ASP154 4.5 50.4 1.0 OD2 D:ASP11 4.6 49.8 1.0 O1B D:ATP403 4.6 44.3 1.0 CG D:ASP11 4.7 49.7 1.0 CG2 D:VAL339 4.8 36.5 1.0 OD2 D:ASP154 4.8 50.4 1.0 CD D:GLN137 4.8 36.3 1.0 CA D:GLY13 4.9 44.9 1.0 O1A D:ATP403 4.9 47.1 1.0 O2G D:ATP403 5.0 46.6 1.0

J.Diring, S.Mouilleron, N.Q.Mcdonald, R.Treisman. Rpel-Family Rhogaps Link Rac/CDC42 Gtp Loading to G-Actin Availability. Nat.Cell Biol. V. 21 845 2019.
ISSN: ISSN 1465-7392
PubMed: 31209295
DOI: 10.1038/S41556-019-0337-Y