Calcium in PDB 5wdo: H-Ras Bound to Gmp-Pnp at 277K

All present enzymatic activity of H-Ras Bound to Gmp-Pnp at 277K:
3.6.5.2;

The structure of H-Ras Bound to Gmp-Pnp at 277K, PDB code: 5wdo was solved by J.C.Cofsky, P.Bandaru, C.L.Gee, J.Kuriyan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.59 / 1.65
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	89.959, 89.959, 136.766, 90.00, 90.00, 120.00
R / Rfree (%)	14.2 / 16.8

The structure of H-Ras Bound to Gmp-Pnp at 277K also contains other interesting chemical elements:

Magnesium	(Mg)	2 atoms
Sodium	(Na)	1 atom

The binding sites of Calcium atom in the H-Ras Bound to Gmp-Pnp at 277K (pdb code 5wdo). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the H-Ras Bound to Gmp-Pnp at 277K, PDB code: 5wdo:

Calcium binding site 1 out of 1 in the H-Ras Bound to Gmp-Pnp at 277K


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of H-Ras Bound to Gmp-Pnp at 277K within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca201 b:19.4 occ:1.00 O A:PHE28 2.3 20.1 1.0 OD1 A:ASP30 2.3 23.9 1.0 H A:ASP30 3.4 22.3 1.0 C A:PHE28 3.5 21.6 1.0 CG A:ASP30 3.6 29.3 1.0 HA A:VAL29 3.6 19.4 1.0 N A:ASP30 4.0 18.6 1.0 HB2 A:ASP30 4.2 27.6 1.0 HB3 A:PHE28 4.2 21.8 1.0 H A:PHE28 4.3 23.6 1.0 CA A:VAL29 4.3 16.2 1.0 O A:HOH357 4.3 43.6 1.0 N A:VAL29 4.4 17.6 1.0 CB A:ASP30 4.4 23.0 1.0 O A:HOH399 4.5 27.4 1.0 OD2 A:ASP30 4.5 24.9 1.0 HD2 A:PHE28 4.5 25.5 1.0 CA A:PHE28 4.6 16.6 1.0 HB2 A:HIS27 4.6 22.9 1.0 N A:PHE28 4.6 19.7 1.0 C A:VAL29 4.7 17.8 1.0 CB A:PHE28 4.8 18.1 1.0 CA A:ASP30 4.9 19.6 1.0 ND1 A:HIS27 4.9 22.5 1.0

P.Bandaru, N.H.Shah, M.Bhattacharyya, J.P.Barton, Y.Kondo, J.C.Cofsky, C.L.Gee, A.K.Chakraborty, T.Kortemme, R.Ranganathan, J.Kuriyan. Deconstruction of the Ras Switching Cycle Through Saturation Mutagenesis. Elife V. 6 2017.
ISSN: ESSN 2050-084X
PubMed: 28686159
DOI: 10.7554/ELIFE.27810