Calcium in PDB 3lo5: Crystal Structure of the Dominant Negative S17N Mutant of Ras

The structure of Crystal Structure of the Dominant Negative S17N Mutant of Ras, PDB code: 3lo5 was solved by N.Nassar, K.Singh, M.Garcia-Diaz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.81 / 2.57
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	92.475, 102.184, 117.820, 90.00, 90.00, 90.00
R / Rfree (%)	23.8 / 29.6

The binding sites of Calcium atom in the Crystal Structure of the Dominant Negative S17N Mutant of Ras (pdb code 3lo5). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of the Dominant Negative S17N Mutant of Ras, PDB code: 3lo5:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Crystal Structure of the Dominant Negative S17N Mutant of Ras


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of the Dominant Negative S17N Mutant of Ras within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca167 b:79.0 occ:1.00 O1A A:GDP180 2.7 44.1 1.0 PA A:GDP180 4.2 40.3 1.0 O3B A:GDP180 4.4 45.2 1.0 O2B A:GDP180 4.8 33.4 1.0 O2A A:GDP180 4.8 29.9 1.0 O3A A:GDP180 4.8 47.8 1.0 PB A:GDP180 4.9 38.7 1.0

Calcium binding site 2 out of 4 in the Crystal Structure of the Dominant Negative S17N Mutant of Ras


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of the Dominant Negative S17N Mutant of Ras within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca168 b:83.3 occ:1.00 O1A C:GDP180 2.8 45.1 1.0 O2B C:GDP180 3.0 59.4 1.0 O C:HOH175 3.2 47.2 1.0 PB C:GDP180 3.7 56.5 1.0 O3B C:GDP180 3.8 53.7 1.0 O3A C:GDP180 3.9 49.0 1.0 PA C:GDP180 3.9 41.2 1.0 N C:GLY13 4.8 38.5 1.0 C5' C:GDP180 4.8 58.9 1.0 O5' C:GDP180 5.0 70.1 1.0 O2A C:GDP180 5.0 47.5 1.0 CA C:GLY13 5.0 38.8 1.0

Calcium binding site 3 out of 4 in the Crystal Structure of the Dominant Negative S17N Mutant of Ras


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of the Dominant Negative S17N Mutant of Ras within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca167 b:49.9 occ:1.00 O1A E:GDP180 2.6 43.5 1.0 OD2 E:ASP33 2.7 56.6 1.0 O E:HOH176 2.8 40.0 1.0 OD1 E:ASP33 3.1 46.6 1.0 CG E:ASP33 3.2 53.8 1.0 O2B E:GDP180 3.9 50.0 1.0 PA E:GDP180 4.0 43.0 1.0 O3B E:GDP180 4.1 45.2 1.0 PB E:GDP180 4.3 42.8 1.0 O3A E:GDP180 4.4 38.2 1.0 C5' E:GDP180 4.5 50.6 1.0 CB E:ASP33 4.6 57.3 1.0 O E:HOH181 4.7 35.0 1.0 O5' E:GDP180 4.8 46.6 1.0

Calcium binding site 4 out of 4 in the Crystal Structure of the Dominant Negative S17N Mutant of Ras


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of the Dominant Negative S17N Mutant of Ras within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca168 b:76.1 occ:0.50 OD2 E:ASP30 3.0 0.5 1.0 CG E:ASP30 3.4 93.4 1.0 OE2 E:GLU31 3.4 95.7 1.0 OD1 E:ASP30 3.7 96.3 1.0 OE1 E:GLU31 3.7 0.4 1.0 CD E:GLU31 4.0 91.4 1.0 CB E:ASP30 4.3 72.5 1.0 N E:ASP30 4.3 64.8 1.0 O E:PHE28 4.8 39.3 1.0 CA E:ASP30 5.0 62.4 1.0

N.Nassar, K.Singh, M.Garcia-Diaz. Structure of the Dominant Negative S17N Mutant of Ras Biochemistry V. 49 1970 2010.
ISSN: ISSN 0006-2960
PubMed: 20131908
DOI: 10.1021/BI9020742