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

The structure of H-Ras Set 2 Ca(Oac)2, on, PDB code: 4dlt 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)	26.65 / 1.70
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	88.704, 88.704, 134.360, 90.00, 90.00, 120.00
R / Rfree (%)	18.1 / 20.4

The structure of H-Ras Set 2 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 2 Ca(Oac)2, on (pdb code 4dlt). 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 2 Ca(Oac)2, on, PDB code: 4dlt:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the H-Ras Set 2 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 2 Ca(Oac)2, on within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca202 b:24.9 occ:1.00 O A:PHE28 2.4 24.6 1.0 OD1 A:ASP30 2.4 26.8 1.0 O A:HOH307 2.5 31.9 1.0 O A:HOH406 2.6 33.2 1.0 C A:PHE28 3.6 25.2 1.0 CG A:ASP30 3.6 29.3 1.0 N A:ASP30 4.0 23.3 1.0 CA A:VAL29 4.3 23.1 1.0 CB A:ASP30 4.4 25.9 1.0 O A:HOH310 4.4 31.2 1.0 N A:VAL29 4.4 21.8 1.0 OD2 A:ASP30 4.6 28.1 1.0 O A:HOH360 4.6 41.3 1.0 CA A:PHE28 4.6 21.9 1.0 C A:VAL29 4.6 25.6 1.0 N A:PHE28 4.6 24.3 1.0 CA A:ASP30 4.8 26.5 1.0 CB A:PHE28 4.8 23.7 1.0 ND1 A:HIS27 5.0 25.9 1.0

Calcium binding site 2 out of 2 in the H-Ras Set 2 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 2 Ca(Oac)2, on within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca204 b:35.7 occ:0.70 O A:TYR137 2.4 25.4 1.0 O A:HOH366 2.6 36.6 1.0 OXT A:ACT206 2.6 38.5 0.7 O A:ASP107 2.6 43.0 1.0 O A:HOH414 2.6 39.8 1.0 O A:ACT206 2.8 36.3 0.7 C A:ACT206 3.1 39.6 0.7 C A:TYR137 3.6 27.3 1.0 C A:ASP107 3.6 43.0 1.0 CA A:TYR137 4.2 26.5 1.0 O A:HOH394 4.3 45.1 1.0 CA A:ASP108 4.3 40.6 1.0 NH2 A:ARG97 4.3 34.5 1.0 OD1 A:ASP107 4.3 55.4 1.0 N A:ASP108 4.4 39.5 1.0 CB A:TYR137 4.5 27.3 1.0 CG A:ASP107 4.5 54.1 1.0 OD1 A:ASP108 4.6 55.2 1.0 CE A:MET111 4.6 35.3 1.0 CA A:ASP107 4.6 47.8 1.0 N A:GLY138 4.6 22.8 1.0 CH3 A:ACT206 4.6 36.8 0.7 O A:HOH391 4.7 35.1 1.0 CG2 A:ILE139 4.7 22.2 1.0 N A:VAL109 4.7 33.4 1.0 OD2 A:ASP107 4.8 58.4 1.0 CA A:GLY138 4.8 25.3 1.0 O A:VAL109 4.9 27.2 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