Calcium in PDB 2cyy: Crystal Structure of PH1519 From Pyrococcus Horikosii OT3

The structure of Crystal Structure of PH1519 From Pyrococcus Horikosii OT3, PDB code: 2cyy was solved by N.Okazaki, N.Nakano, A.Shinkai, S.Yokoyama, Riken Structuralgenomics/Proteomics Initiative (Rsgi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.58 / 1.80
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	130.573, 130.573, 47.716, 90.00, 90.00, 120.00
R / Rfree (%)	21.9 / 24.5

The binding sites of Calcium atom in the Crystal Structure of PH1519 From Pyrococcus Horikosii OT3 (pdb code 2cyy). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of PH1519 From Pyrococcus Horikosii OT3, PDB code: 2cyy:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Crystal Structure of PH1519 From Pyrococcus Horikosii OT3


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of PH1519 From Pyrococcus Horikosii OT3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca2001 b:52.0 occ:1.00 O A:HOH2046 2.5 46.4 1.0 CG2 A:THR146 3.7 15.0 1.0 CB A:THR146 4.4 15.0 1.0 CA A:THR146 4.4 11.7 1.0 OE2 A:GLU95 4.5 11.6 1.0 O A:HOH2007 4.5 16.9 1.0 O A:THR145 4.6 11.3 1.0

Calcium binding site 2 out of 4 in the Crystal Structure of PH1519 From Pyrococcus Horikosii OT3


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of PH1519 From Pyrococcus Horikosii OT3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca2002 b:26.0 occ:1.00 O A:LYS112 2.3 14.7 1.0 O A:GLY64 2.3 16.7 1.0 O A:HOH2018 2.5 19.2 1.0 O A:HOH2098 2.5 18.7 1.0 OG A:SER66 2.7 19.1 1.0 C A:GLY64 3.3 16.3 1.0 C A:LYS112 3.4 14.7 1.0 CA A:GLY64 3.8 16.3 1.0 CB A:SER66 3.8 19.4 1.0 CA A:LYS112 3.8 13.2 1.0 N A:SER66 4.0 16.2 1.0 CB A:LYS112 4.2 17.9 1.0 N A:TYR65 4.5 15.7 1.0 O A:HOH2138 4.5 21.8 1.0 N A:ASN113 4.5 14.1 1.0 CA A:SER66 4.5 18.3 1.0 CA A:CA2003 4.6 15.9 0.5 CA A:TYR65 4.9 15.9 1.0 CA A:ASN113 4.9 15.4 1.0 C A:TYR65 4.9 17.5 1.0 O A:HOH2035 5.0 22.8 1.0

Calcium binding site 3 out of 4 in the Crystal Structure of PH1519 From Pyrococcus Horikosii OT3


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of PH1519 From Pyrococcus Horikosii OT3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca2003 b:15.9 occ:0.50 OG A:SER66 2.9 19.1 1.0 O A:HOH2029 3.1 23.9 1.0 O A:HOH2018 3.4 19.2 1.0 CB A:SER66 3.6 19.4 1.0 SE A:MSE67 4.1 24.6 0.5 CG A:MSE67 4.2 20.0 0.5 O A:LYS112 4.4 14.7 1.0 C A:SER66 4.5 17.5 1.0 O A:SER66 4.5 15.6 1.0 CA A:ASN113 4.6 15.4 1.0 CA A:CA2002 4.6 26.0 1.0 CA A:SER66 4.7 18.3 1.0 N A:MSE67 4.9 15.2 1.0 CB A:ASN113 5.0 17.7 1.0

Calcium binding site 4 out of 4 in the Crystal Structure of PH1519 From Pyrococcus Horikosii OT3


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of PH1519 From Pyrococcus Horikosii OT3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca2004 b:69.8 occ:1.00 O A:HOH2218 2.1 46.0 1.0 O A:HOH2217 2.2 48.6 1.0 O A:HOH2054 2.2 33.6 1.0 O A:HOH2140 2.7 45.2 1.0 O A:HOH2186 3.9 57.0 1.0 O A:HOH2036 3.9 23.5 1.0 O A:HOH2134 4.1 53.1 1.0 OD1 A:ASP122 4.3 27.2 1.0 O A:LEU121 4.4 14.7 1.0 CA A:GLY125 4.5 17.8 1.0 CA A:ASP122 4.5 16.8 1.0 O A:ASP122 4.6 17.4 1.0 C A:GLY125 4.8 17.8 1.0 O A:HOH2052 4.9 43.0 1.0

N.Okazaki, N.Nakano, A.Shinkai, S.Yokoyama. Crystal Structure of PH1519 From Pyrococcus Horikosii OT3 To Be Published.