Magnesium in PDB 4o2w: Crystal Structure of the Third RCC1-Like Domain of HERC1

The structure of Crystal Structure of the Third RCC1-Like Domain of HERC1, PDB code: 4o2w was solved by A.Dong, J.Hu, Y.Li, J.R.Walker, C.Bountra, C.H.Arrowsmith, A.M.Edwards, Y.Tong, Structural Genomics Consortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.00
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	53.383, 70.902, 105.549, 70.93, 81.26, 90.84
R / Rfree (%)	18.1 / 22.1

The structure of Crystal Structure of the Third RCC1-Like Domain of HERC1 also contains other interesting chemical elements:

Chlorine

(Cl)

5 atoms

The binding sites of Magnesium atom in the Crystal Structure of the Third RCC1-Like Domain of HERC1 (pdb code 4o2w). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Crystal Structure of the Third RCC1-Like Domain of HERC1, PDB code: 4o2w:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Crystal Structure of the Third RCC1-Like Domain of HERC1


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 the Third RCC1-Like Domain of HERC1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg4401 b:30.5 occ:1.00 O A:HOH4632 2.0 24.4 1.0 O A:HOH4583 2.1 23.4 1.0 OD1 A:ASP4213 2.1 20.2 1.0 OD1 A:ASP4215 2.2 24.8 1.0 O A:HOH4564 2.2 25.4 1.0 O A:HOH4586 2.3 25.8 1.0 CG A:ASP4215 3.1 23.0 1.0 CG A:ASP4213 3.1 19.4 1.0 OD2 A:ASP4215 3.4 27.3 1.0 OD2 A:ASP4213 3.4 20.4 1.0 N A:ASP4215 4.2 18.0 1.0 CB A:ASP4215 4.3 21.1 1.0 N A:GLY4214 4.4 16.4 1.0 CB A:ASP4213 4.4 17.7 1.0 O A:HOH4633 4.6 27.1 1.0 CA A:ASP4215 4.6 19.0 1.0 O A:HOH4608 4.7 34.9 1.0 CA A:ASP4213 4.9 17.4 1.0 O A:SER4224 4.9 24.9 1.0

Magnesium binding site 2 out of 3 in the Crystal Structure of the Third RCC1-Like Domain of HERC1


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 the Third RCC1-Like Domain of HERC1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg4401 b:30.7 occ:1.00 OD1 B:ASP4215 2.0 19.8 1.0 O B:HOH4658 2.1 26.9 1.0 OD1 B:ASP4213 2.1 21.2 1.0 O B:HOH4525 2.1 18.7 1.0 O B:HOH4631 2.2 22.2 1.0 O B:HOH4530 2.4 19.9 1.0 CG B:ASP4215 3.0 18.9 1.0 CG B:ASP4213 3.2 18.6 1.0 OD2 B:ASP4215 3.4 20.3 1.0 OD2 B:ASP4213 3.5 17.9 1.0 N B:ASP4215 4.2 16.3 1.0 N B:GLY4214 4.3 16.6 1.0 O B:HOH4590 4.3 21.7 1.0 CB B:ASP4215 4.3 17.9 1.0 CB B:ASP4213 4.5 17.7 1.0 O B:SER4224 4.5 29.3 1.0 CA B:ASP4215 4.6 16.8 1.0 CA B:ASP4213 4.9 16.8 1.0 C B:GLY4214 5.0 16.0 1.0 C B:ASP4213 5.0 16.8 1.0

Magnesium binding site 3 out of 3 in the Crystal Structure of the Third RCC1-Like Domain of HERC1


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of the Third RCC1-Like Domain of HERC1 within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg4401 b:27.3 occ:1.00 O D:HOH4547 2.1 19.8 1.0 O D:HOH4583 2.1 17.6 1.0 O D:HOH4559 2.1 22.3 1.0 OD1 D:ASP4215 2.2 20.7 1.0 OD1 D:ASP4213 2.2 16.9 1.0 O D:HOH4552 2.3 22.9 1.0 CG D:ASP4215 3.0 19.4 1.0 CG D:ASP4213 3.2 16.3 1.0 OD2 D:ASP4215 3.3 20.3 1.0 OD2 D:ASP4213 3.6 19.5 1.0 O D:HOH4648 4.0 32.3 1.0 N D:ASP4215 4.2 16.5 1.0 N D:GLY4214 4.3 14.5 1.0 CB D:ASP4215 4.3 18.8 1.0 O D:HOH4659 4.4 26.5 1.0 CB D:ASP4213 4.5 15.2 1.0 CA D:ASP4215 4.6 17.3 1.0 O D:SER4224 4.6 24.6 1.0 CA D:ASP4213 4.9 14.1 1.0 C D:GLY4214 4.9 15.8 1.0 CA D:GLY4214 5.0 15.7 1.0

J.Hu, A.Dong, Y.Li, J.R.Walker, C.Bountra, C.H.Arrowsmith, A.M.Edwards, Y.Tong, Structural Genomics Consortium (Sgc). Crystal Structure of the Third RCC1-Like Domain of HERC1 To Be Published.