Magnesium in PDB 6r3v: Crystal Structure of Rhoa-Gdp-Pi in Complex with Rhogap

The structure of Crystal Structure of Rhoa-Gdp-Pi in Complex with Rhogap, PDB code: 6r3v was solved by Y.Jin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	43.48 / 1.75
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	114.060, 122.780, 67.190, 90.00, 90.00, 90.00
R / Rfree (%)	17.7 / 20.7

The binding sites of Magnesium atom in the Crystal Structure of Rhoa-Gdp-Pi in Complex with Rhogap (pdb code 6r3v). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Crystal Structure of Rhoa-Gdp-Pi in Complex with Rhogap, PDB code: 6r3v:

Magnesium binding site 1 out of 1 in the Crystal Structure of Rhoa-Gdp-Pi in Complex with Rhogap


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 Rhoa-Gdp-Pi in Complex with Rhogap within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg203 b:33.8 occ:1.00 O1B B:GDP202 1.9 28.9 1.0 O3 B:PO4204 2.0 36.1 1.0 O B:HOH308 2.1 28.6 1.0 OG1 B:THR37 2.1 39.3 1.0 OG1 B:THR19 2.1 34.1 1.0 O B:HOH303 2.2 33.8 1.0 CB B:THR37 3.1 47.6 1.0 PB B:GDP202 3.2 32.2 1.0 CB B:THR19 3.2 30.6 1.0 P B:PO4204 3.4 36.3 1.0 O3B B:GDP202 3.5 32.2 1.0 N B:THR37 3.8 50.9 1.0 N B:THR19 3.9 30.5 1.0 OD2 B:ASP59 4.1 34.5 1.0 CA B:THR37 4.1 49.4 1.0 O1A B:GDP202 4.1 31.9 1.0 CA B:THR19 4.1 30.0 1.0 CG2 B:THR37 4.2 55.7 1.0 CG2 B:THR19 4.3 32.5 1.0 O4 B:PO4204 4.3 34.2 1.0 OD1 B:ASP59 4.3 33.5 1.0 O2 B:PO4204 4.3 34.0 1.0 O2B B:GDP202 4.3 28.0 1.0 O3A B:GDP202 4.3 33.6 1.0 O1 B:PO4204 4.4 29.5 1.0 NH2 A:ARG85 4.5 47.9 1.0 O B:THR60 4.5 27.9 1.0 O B:HOH346 4.5 48.6 1.0 CG B:ASP59 4.5 35.7 1.0 PA B:GDP202 4.6 35.1 1.0 O B:VAL35 4.8 49.6 0.7 CB B:LYS18 4.8 27.3 1.0 C B:PRO36 4.8 50.0 0.8 O2A B:GDP202 4.9 34.1 1.0 NZ B:LYS18 4.9 28.8 1.0 CE B:LYS18 5.0 28.9 1.0

R.W.Molt Jr., E.Pellegrini, Y.Jin. A Gap-Gtpase-Gdp-Piintermediate Crystal Structure Analyzed By Dft Shows Gtp Hydrolysis Involves Serial Proton Transfers. Chemistry V. 25 8484 2019.
ISSN: ISSN 0947-6539
PubMed: 31038818
DOI: 10.1002/CHEM.201901627