Magnesium in PDB 1u8y: Crystal Structures of Ral-Gppnhp and Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present in Ras and Rap

The structure of Crystal Structures of Ral-Gppnhp and Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present in Ras and Rap, PDB code: 1u8y was solved by N.I.Nicely, J.Kosak, V.De Serrano, C.Mattos, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	23.93 / 1.55
Space group	P 42 2 2
Cell size a, b, c (Å), α, β, γ (°)	77.318, 77.318, 116.134, 90.00, 90.00, 90.00
R / Rfree (%)	21.3 / 23.8

The binding sites of Magnesium atom in the Crystal Structures of Ral-Gppnhp and Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present in Ras and Rap (pdb code 1u8y). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Crystal Structures of Ral-Gppnhp and Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present in Ras and Rap, PDB code: 1u8y:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Crystal Structures of Ral-Gppnhp and Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present in Ras and Rap


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structures of Ral-Gppnhp and Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present in Ras and Rap within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg301 b:21.6 occ:1.00 O A:HOH401 2.1 19.4 1.0 OG A:SER28 2.1 17.6 1.0 O A:HOH426 2.1 21.1 1.0 O2G A:GNP201 2.2 21.9 1.0 O A:HOH406 2.2 18.7 1.0 O2B A:GNP201 2.2 17.8 1.0 CB A:SER28 3.2 16.6 1.0 PG A:GNP201 3.2 21.8 1.0 PB A:GNP201 3.3 18.6 1.0 N3B A:GNP201 3.4 18.9 1.0 N A:SER28 3.9 15.3 1.0 O3G A:GNP201 4.0 22.5 1.0 OD2 A:ASP68 4.1 21.8 1.0 CA A:SER28 4.1 15.6 1.0 OD1 A:ASP68 4.1 23.0 1.0 O2A A:GNP201 4.3 19.0 1.0 O1B A:GNP201 4.3 17.7 1.0 O3A A:GNP201 4.3 17.8 1.0 O A:HOH515 4.3 44.4 1.0 O1G A:GNP201 4.4 23.3 1.0 O A:HOH475 4.5 43.4 1.0 CG A:ASP68 4.5 22.7 1.0 O A:THR69 4.6 33.4 1.0 PA A:GNP201 4.6 18.9 1.0 O1A A:GNP201 4.7 19.6 1.0 CG A:PRO45 4.8 57.5 1.0 CB A:LYS27 4.8 16.9 1.0 CE A:LYS27 4.9 17.7 1.0 C A:LYS27 5.0 15.0 1.0

Magnesium binding site 2 out of 4 in the Crystal Structures of Ral-Gppnhp and Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present in Ras and Rap


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structures of Ral-Gppnhp and Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present in Ras and Rap within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:32.6 occ:0.50 O A:HOH453 2.1 28.2 1.0 O A:HOH457 2.2 26.5 1.0 O A:HOH458 2.4 32.1 1.0 OE2 A:GLU132 4.2 25.6 1.0 O A:SER129 4.2 21.3 1.0 O A:HOH520 4.2 37.2 1.0 CB A:SER129 4.5 19.9 1.0 OE1 A:GLU155 4.6 22.1 1.0 O A:HOH502 4.7 44.3 1.0 OG A:SER129 4.8 21.6 1.0 NH2 A:ARG135 4.8 23.1 1.0 C A:SER129 5.0 19.6 1.0

Magnesium binding site 3 out of 4 in the Crystal Structures of Ral-Gppnhp and Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present in Ras and Rap


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structures of Ral-Gppnhp and Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present in Ras and Rap within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg303 b:15.9 occ:1.00 O B:HOH601 2.1 13.1 1.0 OG B:SER28 2.1 12.8 1.0 O B:HOH615 2.1 13.4 1.0 O2G B:GNP202 2.1 14.6 1.0 O2B B:GNP202 2.2 12.2 1.0 O B:HOH621 2.2 16.2 1.0 CB B:SER28 3.2 12.2 1.0 PG B:GNP202 3.2 14.9 1.0 PB B:GNP202 3.2 12.6 1.0 N3B B:GNP202 3.4 12.9 1.0 N B:SER28 3.9 11.7 1.0 O B:HOH618 3.9 20.4 1.0 OD2 B:ASP68 4.0 15.7 1.0 O3G B:GNP202 4.1 16.8 1.0 CA B:SER28 4.1 11.6 1.0 O2A B:GNP202 4.2 15.6 1.0 OD1 B:ASP68 4.2 14.4 1.0 O3A B:GNP202 4.3 13.7 1.0 O1G B:GNP202 4.3 17.2 1.0 O1B B:GNP202 4.3 12.1 1.0 O B:HOH496 4.3 24.0 1.0 CG B:ASP68 4.5 13.1 1.0 O B:HOH687 4.5 19.7 1.0 PA B:GNP202 4.5 14.4 1.0 O B:THR69 4.6 15.5 1.0 O1A B:GNP202 4.7 15.2 1.0 O B:PRO45 4.8 22.0 1.0 CA B:ALA70 4.8 14.1 1.0 CB B:LYS27 4.9 11.5 1.0 C B:LYS27 5.0 11.1 1.0 CE B:LYS27 5.0 14.0 1.0 CB B:ALA70 5.0 16.7 1.0

Magnesium binding site 4 out of 4 in the Crystal Structures of Ral-Gppnhp and Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present in Ras and Rap


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structures of Ral-Gppnhp and Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present in Ras and Rap within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg304 b:31.2 occ:1.00 O1G B:GNP202 2.1 17.2 1.0 O B:HOH754 2.1 26.6 1.0 O B:HOH628 2.2 23.9 1.0 O B:HOH925 2.3 33.3 1.0 O B:HOH721 2.4 29.9 1.0 O B:HOH501 2.4 35.0 1.0 PG B:GNP202 3.5 14.9 1.0 O3G B:GNP202 4.0 16.8 1.0 O B:HOH496 4.0 24.0 1.0 O B:HOH618 4.0 20.4 1.0 O2G B:GNP202 4.3 14.6 1.0 O B:HOH663 4.4 28.3 1.0 N3B B:GNP202 4.5 12.9 1.0 CA B:GLY23 4.7 14.9 1.0 O B:HOH649 4.8 48.6 1.0 O B:GLY71 4.8 15.8 1.0 N B:GLY71 5.0 15.6 1.0

N.I.Nicely, J.Kosak, V.De Serrano, C.Mattos. Crystal Structures of Ral-Gppnhp and Ral-Gdp Reveal Two Binding Sites That Are Also Present in Ras and Rap Structure V. 12 2025 2004.
ISSN: ISSN 0969-2126
PubMed: 15530367
DOI: 10.1016/J.STR.2004.08.011