Magnesium in PDB 8etd: Crystal Structure of Schizosaccharomyces Pombe RHO1

The structure of Crystal Structure of Schizosaccharomyces Pombe RHO1, PDB code: 8etd was solved by Q.Huang, J.Xie, J.Seetharaman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.14 / 2.78
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	105.691, 66.349, 75.551, 90, 112.78, 90
R / Rfree (%)	19.1 / 23.2

The binding sites of Magnesium atom in the Crystal Structure of Schizosaccharomyces Pombe RHO1 (pdb code 8etd). 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 Schizosaccharomyces Pombe RHO1, PDB code: 8etd:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Schizosaccharomyces Pombe RHO1


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 Schizosaccharomyces Pombe RHO1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg301 b:18.4 occ:1.00 O A:HOH402 2.2 12.1 1.0 O A:THR37 2.3 20.4 1.0 O3B A:GDP302 2.5 13.7 1.0 O A:HOH406 2.5 16.0 1.0 O1B A:GDP302 2.8 13.5 1.0 PB A:GDP302 3.2 11.5 1.0 OG1 A:THR19 3.3 14.2 1.0 O A:HOH439 3.3 19.9 1.0 C A:THR37 3.4 17.3 1.0 CA A:THR37 3.9 15.3 1.0 O A:HOH443 4.0 21.6 1.0 O2A A:GDP302 4.1 15.9 1.0 CG2 A:THR37 4.1 16.8 1.0 O2B A:GDP302 4.1 14.7 1.0 CB A:THR19 4.3 15.6 1.0 O A:PRO36 4.4 15.3 1.0 O3A A:GDP302 4.4 11.7 1.0 CB A:ALA61 4.5 22.9 1.0 N A:VAL38 4.6 16.6 1.0 O A:THR60 4.6 18.9 1.0 NZ A:LYS18 4.6 11.9 1.0 CB A:THR37 4.7 14.1 1.0 PA A:GDP302 4.8 17.1 1.0 CE A:LYS18 4.9 12.8 1.0 N A:THR19 5.0 12.8 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Schizosaccharomyces Pombe RHO1


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 Schizosaccharomyces Pombe RHO1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg301 b:22.1 occ:1.00 O B:HOH407 1.9 32.3 1.0 O1B B:GDP302 2.1 15.0 1.0 O B:HOH409 2.2 17.3 1.0 O B:THR37 2.5 19.9 1.0 OG1 B:THR19 2.7 16.1 1.0 O3B B:GDP302 3.0 15.7 1.0 PB B:GDP302 3.0 16.9 1.0 O B:HOH440 3.6 17.2 1.0 C B:THR37 3.7 15.9 1.0 CB B:THR19 3.8 17.8 1.0 O2B B:GDP302 3.8 13.1 1.0 O B:THR60 4.0 15.9 1.0 OD2 B:ASP59 4.2 17.4 1.0 N B:THR19 4.2 16.8 1.0 NZ B:LYS18 4.4 14.4 1.0 O3A B:GDP302 4.4 13.8 1.0 O2A B:GDP302 4.4 14.1 1.0 CE B:LYS18 4.4 12.3 1.0 OD1 B:ASP59 4.5 19.2 1.0 CA B:THR37 4.5 15.7 1.0 CA B:THR19 4.6 16.5 1.0 O B:PRO36 4.6 16.2 1.0 N B:VAL38 4.7 18.2 1.0 CB B:ALA61 4.7 22.9 1.0 CG B:ASP59 4.7 15.4 1.0 CA B:VAL38 4.7 20.8 1.0 CB B:LYS18 4.8 16.2 1.0 PA B:GDP302 4.8 15.0 1.0 CG2 B:THR37 4.8 16.1 1.0 CG2 B:THR19 4.9 16.3 1.0

Q.Huang, J.Xie, J.Seetharaman. Crystal Structure of Schizosaccharomyces Pombe RHO1 Reveals Its Evolutionary Relationship with Other Rho Gtpases. Biology (Basel) V. 11 2022.
ISSN: ESSN 2079-7737
PubMed: 36358328
DOI: 10.3390/BIOLOGY11111627