Calcium in PDB 3dni: Crystallographic Refinement and Structure of Dnase I at 2 Angstroms Resolution

All present enzymatic activity of Crystallographic Refinement and Structure of Dnase I at 2 Angstroms Resolution:
3.1.21.1;

The structure of Crystallographic Refinement and Structure of Dnase I at 2 Angstroms Resolution, PDB code: 3dni was solved by C.Oefner, D.Suck, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	6.00 / 2.00
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	131.600, 54.900, 38.400, 90.00, 91.40, 90.00
R / Rfree (%)	n/a / n/a

The binding sites of Calcium atom in the Crystallographic Refinement and Structure of Dnase I at 2 Angstroms Resolution (pdb code 3dni). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystallographic Refinement and Structure of Dnase I at 2 Angstroms Resolution, PDB code: 3dni:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystallographic Refinement and Structure of Dnase I at 2 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystallographic Refinement and Structure of Dnase I at 2 Angstroms Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca281 b:7.4 occ:1.00 OD2 A:ASP201 2.4 7.5 1.0 O A:THR207 2.5 10.8 1.0 O A:THR203 2.5 8.1 1.0 OD1 A:ASP201 2.6 6.2 1.0 O A:HOH355 2.6 14.7 1.0 O A:HOH356 2.7 15.0 1.0 CG A:ASP201 2.8 7.5 1.0 O A:THR205 2.8 12.5 1.0 OG1 A:THR203 2.9 10.1 1.0 C A:THR203 3.5 9.1 1.0 C A:THR207 3.7 11.9 1.0 C A:THR205 4.0 13.1 1.0 CB A:THR203 4.2 9.1 1.0 CA A:THR203 4.2 8.9 1.0 N A:THR203 4.2 7.1 1.0 N A:THR207 4.2 14.1 1.0 CB A:ASP201 4.3 5.7 1.0 C A:SER206 4.4 15.2 1.0 CA A:ASN208 4.4 10.4 1.0 N A:ASN208 4.5 10.6 1.0 CA A:THR207 4.6 12.5 1.0 N A:THR205 4.6 12.1 1.0 C A:ALA204 4.6 11.9 1.0 N A:ALA204 4.6 10.4 1.0 OG1 A:THR207 4.7 11.7 1.0 CA A:SER206 4.8 15.2 1.0 O A:SER206 4.8 15.4 1.0 CE2 A:TYR253 4.8 9.0 1.0 N A:SER206 4.8 13.8 1.0 O A:ALA204 4.8 12.5 1.0 OH A:TYR253 4.9 10.2 1.0 CA A:THR205 4.9 12.9 1.0 CA A:ALA204 4.9 11.3 1.0 OG1 A:THR205 4.9 13.4 1.0

Calcium binding site 2 out of 2 in the Crystallographic Refinement and Structure of Dnase I at 2 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystallographic Refinement and Structure of Dnase I at 2 Angstroms Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca282 b:15.4 occ:0.60 OE1 A:GLU112 2.2 17.1 1.0 O A:PHE109 2.2 9.5 1.0 O A:HOH409 2.3 11.1 0.5 OD2 A:ASP107 2.6 27.1 1.0 O A:HOH408 2.7 17.7 0.5 OD2 A:ASP99 2.8 17.3 1.0 CD A:GLU112 3.3 17.0 1.0 O A:SER110 3.3 7.6 1.0 C A:PHE109 3.4 9.7 1.0 OD1 A:ASP99 3.5 19.4 1.0 CG A:ASP99 3.5 18.9 1.0 C A:SER110 3.7 9.2 1.0 CG A:ASP107 3.7 26.3 1.0 OE2 A:GLU112 3.9 18.7 1.0 O A:HOH446 4.0 15.0 1.0 N A:GLU112 4.1 10.2 1.0 CA A:SER110 4.1 9.6 1.0 N A:SER110 4.2 9.1 1.0 CA A:PHE109 4.3 9.8 1.0 CB A:ASP107 4.3 26.7 1.0 CB A:PHE109 4.4 8.8 1.0 CG A:GLU112 4.4 14.4 1.0 N A:PHE109 4.4 11.9 1.0 N A:ARG111 4.4 6.8 1.0 CB A:GLU112 4.4 12.7 1.0 O A:HOH443 4.7 19.8 1.0 OD1 A:ASP107 4.7 26.1 1.0 CA A:GLU112 4.8 10.5 1.0 CA A:ARG111 4.8 7.8 1.0 C A:ARG111 4.9 9.2 1.0 CB A:ASP99 5.0 18.8 1.0

C.Oefner, D.Suck. Crystallographic Refinement and Structure of Dnase I at 2 A Resolution. J.Mol.Biol. V. 192 605 1986.
ISSN: ISSN 0022-2836
PubMed: 3560229
DOI: 10.1016/0022-2836(86)90280-9