Calcium in PDB 8swc: Rnase H Complex with Aso (Ooo) and Rna

All present enzymatic activity of Rnase H Complex with Aso (Ooo) and Rna:
3.1.26.4;

The structure of Rnase H Complex with Aso (Ooo) and Rna, PDB code: 8swc was solved by Y.-J.Cho, N.Iwamoto, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.48 / 2.68
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	100.617, 100.617, 82.092, 90, 90, 120
R / Rfree (%)	19.2 / 22

The binding sites of Calcium atom in the Rnase H Complex with Aso (Ooo) and Rna (pdb code 8swc). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Rnase H Complex with Aso (Ooo) and Rna, PDB code: 8swc:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Rnase H Complex with Aso (Ooo) and Rna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Rnase H Complex with Aso (Ooo) and Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca302 b:99.6 occ:1.00 O A:PRO177 3.3 74.1 1.0 NH2 A:ARG184 3.6 58.5 1.0 C A:PRO177 3.9 58.0 1.0 CB A:PRO177 4.1 65.9 1.0 CG A:PRO177 4.4 66.2 1.0 CD A:PRO177 4.4 57.0 1.0 CD1 A:LEU176 4.4 62.2 1.0 CA A:PRO177 4.5 62.4 1.0 CE1 A:HIS188 4.6 63.9 1.0 N A:GLY178 4.6 57.7 1.0 CZ A:ARG184 4.7 62.9 1.0 N A:PRO177 4.7 65.1 1.0 NE2 A:HIS188 4.8 52.9 1.0 ND1 A:HIS188 4.8 57.0 1.0 NH1 A:ARG184 4.9 69.7 1.0 CA A:GLY178 4.9 63.3 1.0

Calcium binding site 2 out of 3 in the Rnase H Complex with Aso (Ooo) and Rna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Rnase H Complex with Aso (Ooo) and Rna within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca103 b:107.0 occ:1.00 O6 B:G3 3.1 121.5 1.0 O6 B:G2 3.4 140.0 1.0 C6 B:G3 4.0 115.5 1.0 N7 B:G3 4.1 127.1 1.0 C6 B:G2 4.1 126.2 1.0 N7 B:G2 4.1 135.6 1.0 N4 B:C4 4.2 84.3 1.0 C5 B:G2 4.4 128.5 1.0 C5 B:G3 4.4 119.4 1.0 O4 B:U1 4.8 118.5 1.0 O6 C:OMG21 4.9 88.1 1.0

Calcium binding site 3 out of 3 in the Rnase H Complex with Aso (Ooo) and Rna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Rnase H Complex with Aso (Ooo) and Rna within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca104 b:107.9 occ:1.00 O B:HOH201 3.0 66.6 1.0 N7 B:A14 3.2 59.2 1.0 N7 B:G13 3.5 57.1 1.0 C8 B:A14 4.0 57.0 1.0 C5 B:G13 4.2 58.9 1.0 C8 B:G13 4.2 65.1 1.0 O6 B:G13 4.3 72.5 1.0 C5 B:A14 4.3 50.9 1.0 N6 B:A14 4.4 66.3 1.0 C6 B:G13 4.5 62.8 1.0 C6 B:A14 4.8 59.0 1.0

N.Iwamoto, Y.-J.Cho. Crystal Structure of Rnase H/Rna/Po-Aso Complex at An Atomic Level To Be Published.