Calcium in PDB 6k9a: The Complex of Nrs-1 N Terminal Domain (1-305) with Dgtp

The structure of The Complex of Nrs-1 N Terminal Domain (1-305) with Dgtp, PDB code: 6k9a was solved by X.Chen, J.Gan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.74 / 2.30
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	119.114, 58.007, 47.135, 90.00, 92.96, 90.00
R / Rfree (%)	20.9 / 24.8

The binding sites of Calcium atom in the The Complex of Nrs-1 N Terminal Domain (1-305) with Dgtp (pdb code 6k9a). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the The Complex of Nrs-1 N Terminal Domain (1-305) with Dgtp, PDB code: 6k9a:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the The Complex of Nrs-1 N Terminal Domain (1-305) with Dgtp


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Complex of Nrs-1 N Terminal Domain (1-305) with Dgtp within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:16.9 occ:1.00 O1A A:DGT403 2.3 16.7 1.0 OD1 A:ASP80 2.3 29.1 1.0 O2B A:DGT403 2.3 16.6 1.0 O A:HOH538 2.4 17.3 1.0 O2G A:DGT403 2.4 38.2 1.0 OD1 A:ASP78 2.5 17.1 1.0 OD2 A:ASP78 2.6 16.9 1.0 CG A:ASP78 2.9 17.0 1.0 PB A:DGT403 3.5 19.3 1.0 CG A:ASP80 3.5 19.8 1.0 PA A:DGT403 3.6 18.3 1.0 PG A:DGT403 3.6 28.4 1.0 O3B A:DGT403 3.9 28.0 1.0 O3A A:DGT403 3.9 16.5 1.0 NE2 A:HIS115 4.0 16.6 1.0 O A:HOH541 4.1 22.1 1.0 O A:HOH535 4.2 17.9 1.0 OD2 A:ASP80 4.3 25.8 1.0 O3G A:DGT403 4.3 17.3 1.0 CB A:ASP78 4.4 17.2 1.0 OG A:SER108 4.4 17.4 1.0 C5' A:DGT403 4.5 18.2 1.0 CD2 A:HIS115 4.5 16.9 1.0 CB A:SER108 4.5 17.1 1.0 CA A:ASP80 4.5 18.0 1.0 O5' A:DGT403 4.5 18.2 1.0 CB A:ASP80 4.6 17.7 1.0 O A:LEU79 4.6 18.1 1.0 O2A A:DGT403 4.6 21.0 1.0 O1B A:DGT403 4.7 18.6 1.0 C A:LEU79 4.8 18.1 1.0 N A:ASP80 4.8 18.1 1.0 O1G A:DGT403 4.8 24.8 1.0 O A:LEU114 5.0 17.7 1.0

Calcium binding site 2 out of 2 in the The Complex of Nrs-1 N Terminal Domain (1-305) with Dgtp


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Complex of Nrs-1 N Terminal Domain (1-305) with Dgtp within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca402 b:22.1 occ:1.00 O A:HOH520 2.4 34.5 1.0 O A:GLU142 2.5 19.4 1.0 OD1 A:ASP72 2.5 19.0 1.0 O A:THR69 2.5 19.9 1.0 O A:PHE74 2.6 19.2 1.0 O A:ASP72 2.9 20.7 1.0 CG A:ASP72 3.5 19.1 1.0 N A:PHE74 3.5 19.6 1.0 C A:GLU142 3.6 19.3 1.0 C A:PHE74 3.6 19.1 1.0 C A:THR69 3.7 20.1 1.0 C A:ASP72 3.7 20.4 1.0 CB A:GLU142 4.0 20.1 1.0 CA A:GLU142 4.1 19.3 1.0 CA A:PHE74 4.1 19.1 1.0 OD2 A:ASP72 4.1 18.9 1.0 C A:PRO73 4.2 20.2 1.0 N A:THR69 4.3 18.8 1.0 CA A:LYS70 4.4 21.5 1.0 CA A:ASP72 4.5 20.2 1.0 N A:LYS70 4.5 20.8 1.0 N A:PRO73 4.5 20.4 1.0 N A:ASP72 4.5 20.6 1.0 CB A:ASP72 4.5 19.4 1.0 CB A:PHE74 4.6 18.4 1.0 C A:LYS70 4.7 21.9 1.0 CA A:PRO73 4.7 20.8 1.0 CB A:LEU68 4.7 17.9 1.0 CA A:THR69 4.7 19.5 1.0 CD2 A:LEU68 4.7 17.8 1.0 N A:SER143 4.7 19.3 1.0 CG A:GLU142 4.7 20.7 1.0 N A:VAL75 4.8 19.2 1.0 C A:LEU68 4.9 18.4 1.0 O A:LYS70 4.9 22.4 1.0 O A:PRO73 5.0 20.6 1.0

X.Chen, J.Gan. Structural Studies Reveal A Unique Ring-Shaped Helicase Architecture at the C-Terminus of Deep-Sea Vent Phage Dna Polymerase To Be Published.