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Calcium in PDB 3god: Structural Basis For Dnase Activity of A Conserved Protein Implicated in Crispr-Mediated Antiviral Defense

Protein crystallography data

The structure of Structural Basis For Dnase Activity of A Conserved Protein Implicated in Crispr-Mediated Antiviral Defense, PDB code: 3god was solved by B.Wiedenheft, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 17.97 / 2.17
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 109.870, 110.960, 130.250, 90.00, 90.00, 90.00
R / Rfree (%) 20.3 / 25.8

Other elements in 3god:

The structure of Structural Basis For Dnase Activity of A Conserved Protein Implicated in Crispr-Mediated Antiviral Defense also contains other interesting chemical elements:

Manganese (Mn) 4 atoms
Sodium (Na) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Structural Basis For Dnase Activity of A Conserved Protein Implicated in Crispr-Mediated Antiviral Defense (pdb code 3god). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Structural Basis For Dnase Activity of A Conserved Protein Implicated in Crispr-Mediated Antiviral Defense, PDB code: 3god:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 3god

Go back to Calcium Binding Sites List in 3god
Calcium binding site 1 out of 2 in the Structural Basis For Dnase Activity of A Conserved Protein Implicated in Crispr-Mediated Antiviral Defense


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structural Basis For Dnase Activity of A Conserved Protein Implicated in Crispr-Mediated Antiviral Defense within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca327

b:52.0
occ:1.00
OD2 A:ASP311 2.3 32.8 1.0
O A:HOH509 2.6 36.9 1.0
OD2 A:ASP307 2.7 30.2 1.0
OD1 A:ASP307 2.8 28.8 1.0
CG A:ASP307 3.1 27.8 1.0
CG A:ASP311 3.1 33.8 1.0
OD1 A:ASP311 3.2 35.4 1.0
O A:HOH457 4.3 34.9 1.0
CB A:ASP307 4.6 25.0 1.0
CB A:ASP311 4.6 25.2 1.0
O A:ASP307 4.6 23.2 1.0

Calcium binding site 2 out of 2 in 3god

Go back to Calcium Binding Sites List in 3god
Calcium binding site 2 out of 2 in the Structural Basis For Dnase Activity of A Conserved Protein Implicated in Crispr-Mediated Antiviral Defense


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structural Basis For Dnase Activity of A Conserved Protein Implicated in Crispr-Mediated Antiviral Defense within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca326

b:50.9
occ:1.00
O B:HOH420 2.3 32.9 1.0
OD2 B:ASP307 2.7 30.1 1.0
OD2 B:ASP311 2.7 35.7 1.0
OD1 B:ASP307 2.7 38.5 1.0
OD1 B:ASP311 3.0 35.5 1.0
CG B:ASP307 3.1 28.3 1.0
CG B:ASP311 3.2 32.9 1.0
O B:HOH682 4.5 35.3 1.0
CB B:ASP307 4.6 26.2 1.0
O B:ASP307 4.7 25.5 1.0
O B:HOH645 4.7 32.3 1.0
CB B:ASP311 4.8 25.7 1.0

Reference:

B.Wiedenheft, K.Zhou, M.Jinek, S.M.Coyle, W.Ma, J.A.Doudna. Structural Basis For Dnase Activity of A Conserved Protein Implicated in Crispr-Mediated Genome Defense. Structure V. 17 904 2009.
ISSN: ISSN 0969-2126
PubMed: 19523907
DOI: 10.1016/J.STR.2009.03.019
Page generated: Sat Dec 12 04:13:12 2020

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