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Calcium in PDB 3rs3: H-Ras Soaked in Neat Hexane: 1 of 10 in Mscs Set

Protein crystallography data

The structure of H-Ras Soaked in Neat Hexane: 1 of 10 in Mscs Set, PDB code: 3rs3 was solved by C.Mattos, G.Buhrman, B.Kearney, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.83 / 1.52
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 88.328, 88.328, 135.128, 90.00, 90.00, 120.00
R / Rfree (%) 18.8 / 20.7

Other elements in 3rs3:

The structure of H-Ras Soaked in Neat Hexane: 1 of 10 in Mscs Set also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the H-Ras Soaked in Neat Hexane: 1 of 10 in Mscs Set (pdb code 3rs3). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the H-Ras Soaked in Neat Hexane: 1 of 10 in Mscs Set, PDB code: 3rs3:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in 3rs3

Go back to Calcium Binding Sites List in 3rs3
Calcium binding site 1 out of 3 in the H-Ras Soaked in Neat Hexane: 1 of 10 in Mscs Set


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of H-Ras Soaked in Neat Hexane: 1 of 10 in Mscs Set within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca193

b:15.6
occ:1.00
O A:PHE28 2.4 15.0 1.0
O A:HOH309 2.4 22.1 1.0
OD2 A:ASP30 2.5 18.7 1.0
C A:PHE28 3.6 14.4 1.0
CG A:ASP30 3.7 18.7 1.0
N A:ASP30 4.0 13.4 1.0
CA A:VAL29 4.4 12.6 1.0
N A:VAL29 4.4 13.0 1.0
CB A:ASP30 4.5 17.9 1.0
CA A:PHE28 4.6 15.5 1.0
OD1 A:ASP30 4.6 23.4 1.0
O A:HOH312 4.7 20.6 1.0
C A:VAL29 4.7 15.8 1.0
N A:PHE28 4.7 14.7 1.0
CB A:PHE28 4.8 14.7 1.0
CA A:ASP30 4.9 14.8 1.0
ND1 A:HIS27 5.0 19.3 1.0

Calcium binding site 2 out of 3 in 3rs3

Go back to Calcium Binding Sites List in 3rs3
Calcium binding site 2 out of 3 in the H-Ras Soaked in Neat Hexane: 1 of 10 in Mscs Set


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of H-Ras Soaked in Neat Hexane: 1 of 10 in Mscs Set within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca195

b:20.0
occ:0.53
O A:ARG102 2.4 23.7 1.0
OD2 A:ASP105 2.8 27.1 1.0
OD1 A:ASP105 3.1 43.3 1.0
CG A:ASP105 3.3 30.1 1.0
C A:ARG102 3.5 21.2 1.0
CA A:CA196 3.9 25.4 0.5
CA A:VAL103 4.2 16.4 1.0
N A:VAL103 4.3 18.6 1.0
CA A:ARG102 4.3 19.1 1.0
C A:VAL103 4.6 21.5 1.0
CB A:ASP105 4.6 25.8 1.0
O A:VAL103 4.6 23.3 1.0
CB A:ARG102 4.7 20.4 1.0
N A:ASP105 4.8 21.6 1.0
CA A:ASP105 4.9 21.1 1.0

Calcium binding site 3 out of 3 in 3rs3

Go back to Calcium Binding Sites List in 3rs3
Calcium binding site 3 out of 3 in the H-Ras Soaked in Neat Hexane: 1 of 10 in Mscs Set


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of H-Ras Soaked in Neat Hexane: 1 of 10 in Mscs Set within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca196

b:25.4
occ:0.48
OD2 A:ASP105 2.5 27.1 1.0
O A:VAL103 2.6 23.3 1.0
C A:VAL103 3.5 21.5 1.0
NH1 A:ARG73 3.7 38.6 1.0
CG A:ASP105 3.8 30.1 1.0
CA A:CA195 3.9 20.0 0.5
CA A:VAL103 4.2 16.4 1.0
O A:HOH496 4.2 33.2 1.0
O A:ARG102 4.4 23.7 1.0
CB A:ASP105 4.5 25.8 1.0
N A:LYS104 4.5 17.3 1.0
C A:LYS104 4.6 20.6 1.0
N A:ASP105 4.6 21.6 1.0
CA A:LYS104 4.7 18.6 1.0
OD1 A:ASP105 4.7 43.3 1.0
CD A:ARG73 4.9 44.4 1.0
CG A:ARG73 5.0 39.0 1.0
O A:LYS104 5.0 23.7 1.0
CZ A:ARG73 5.0 41.9 1.0

Reference:

G.Buhrman, C.O Connor, B.Zerbe, B.M.Kearney, R.Napoleon, E.A.Kovrigina, S.Vajda, D.Kozakov, E.L.Kovrigin, C.Mattos. Analysis of Binding Site Hot Spots on the Surface of Ras Gtpase. J.Mol.Biol. V. 413 773 2011.
ISSN: ISSN 0022-2836
PubMed: 21945529
DOI: 10.1016/J.JMB.2011.09.011
Page generated: Sat Jul 13 18:10:41 2024

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