Calcium in PDB 4dlu: H-Ras Set 1 Ca(Oac)2, on

The structure of H-Ras Set 1 Ca(Oac)2, on, PDB code: 4dlu was solved by G.Holzapfel, C.Mattos, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.42 / 1.60
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	88.822, 88.822, 134.779, 90.00, 90.00, 120.00
R / Rfree (%)	18.2 / 20.4

The structure of H-Ras Set 1 Ca(Oac)2, on also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Calcium atom in the H-Ras Set 1 Ca(Oac)2, on (pdb code 4dlu). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the H-Ras Set 1 Ca(Oac)2, on, PDB code: 4dlu:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the H-Ras Set 1 Ca(Oac)2, on


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of H-Ras Set 1 Ca(Oac)2, on within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca202 b:20.6 occ:1.00 O A:PHE28 2.4 21.0 1.0 O A:HOH307 2.4 27.8 1.0 OD1 A:ASP30 2.4 23.3 1.0 O A:HOH419 2.6 27.1 1.0 C A:PHE28 3.6 20.9 1.0 CG A:ASP30 3.7 24.3 1.0 N A:ASP30 4.0 20.3 1.0 O A:HOH357 4.3 34.9 1.0 CA A:VAL29 4.3 20.4 1.0 N A:VAL29 4.4 19.4 1.0 O A:HOH310 4.5 26.4 1.0 CB A:ASP30 4.5 23.9 1.0 OD2 A:ASP30 4.6 24.8 1.0 CA A:PHE28 4.6 17.8 1.0 C A:VAL29 4.6 22.2 1.0 N A:PHE28 4.7 19.7 1.0 CB A:PHE28 4.9 20.1 1.0 CA A:ASP30 4.9 21.6 1.0 ND1 A:HIS27 4.9 21.5 1.0

Calcium binding site 2 out of 2 in the H-Ras Set 1 Ca(Oac)2, on


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of H-Ras Set 1 Ca(Oac)2, on within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca204 b:30.5 occ:1.00 O A:ASP107 2.4 29.5 1.0 O A:TYR137 2.5 23.7 1.0 O A:HOH365 2.5 28.9 1.0 O A:HOH447 2.6 33.0 1.0 OXT A:ACT206 2.6 30.8 1.0 O A:ACT206 2.7 32.2 1.0 O A:HOH432 2.7 32.5 1.0 C A:ACT206 3.0 35.0 1.0 C A:ASP107 3.5 30.6 1.0 C A:TYR137 3.6 24.5 1.0 OD1 A:ASP107 3.8 45.4 1.0 CA A:ASP108 4.1 27.5 1.0 N A:ASP108 4.1 26.6 1.0 CA A:TYR137 4.3 24.2 1.0 NH2 A:ARG97 4.4 29.8 1.0 O A:HOH405 4.4 38.2 1.0 CA A:ASP107 4.5 34.0 1.0 N A:VAL109 4.5 26.6 1.0 CH3 A:ACT206 4.5 31.7 1.0 CB A:TYR137 4.6 23.9 1.0 N A:GLY138 4.6 20.2 1.0 CE A:MET111 4.7 28.5 1.0 O A:HOH397 4.7 32.3 1.0 C A:ASP108 4.7 28.5 1.0 CG2 A:ILE139 4.7 18.9 1.0 O A:VAL109 4.8 20.4 1.0 CG A:ASP107 4.8 42.5 1.0 CA A:GLY138 4.9 21.5 1.0

G.Holzapfel, G.Buhrman, C.Mattos. Shift in the Equilibrium Between on and Off States of the Allosteric Switch in Ras-Gppnhp Affected By Small Molecules and Bulk Solvent Composition. Biochemistry V. 51 6114 2012.
ISSN: ISSN 0006-2960
PubMed: 22845804
DOI: 10.1021/BI300509J