Calcium in PDB 4yij: Crystal Structure of Staphylcoccal Nuclease Variant Delta+Phs A109E at Cryogenic Temperature

All present enzymatic activity of Crystal Structure of Staphylcoccal Nuclease Variant Delta+Phs A109E at Cryogenic Temperature:
3.1.31.1;

The structure of Crystal Structure of Staphylcoccal Nuclease Variant Delta+Phs A109E at Cryogenic Temperature, PDB code: 4yij was solved by L.A.Skerritt, P.C.Bell-Upp, J.L.Schlessman, E.B.Garcia-Moreno, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	54.27 / 1.64
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	46.960, 54.283, 108.533, 90.00, 90.00, 90.00
R / Rfree (%)	15.7 / 19

The binding sites of Calcium atom in the Crystal Structure of Staphylcoccal Nuclease Variant Delta+Phs A109E at Cryogenic Temperature (pdb code 4yij). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of Staphylcoccal Nuclease Variant Delta+Phs A109E at Cryogenic Temperature, PDB code: 4yij:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of Staphylcoccal Nuclease Variant Delta+Phs A109E at Cryogenic Temperature


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 Staphylcoccal Nuclease Variant Delta+Phs A109E at Cryogenic Temperature within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca201 b:8.7 occ:1.00 O A:HOH365 2.3 8.9 1.0 OD1 A:ASP21 2.4 7.7 1.0 O A:HOH350 2.4 8.2 1.0 OD2 A:ASP19 2.4 9.3 1.0 O A:HOH354 2.4 8.6 1.0 O A:HOH378 2.4 18.7 1.0 OD1 A:ASP19 2.9 8.8 1.0 CG A:ASP19 3.0 9.1 1.0 CG A:ASP21 3.3 8.1 1.0 OD2 A:ASP21 3.6 7.8 1.0 OE2 B:GLU135 4.2 12.6 1.0 O6P A:THP202 4.3 7.7 1.0 N A:ASP21 4.3 7.1 1.0 OG1 A:THR22 4.4 7.8 0.7 CB A:ASP19 4.4 8.5 1.0 CG2 A:THR22 4.5 10.3 0.3 O A:HOH371 4.5 13.2 1.0 CB A:ASP21 4.5 7.4 1.0 O A:HOH356 4.6 9.7 1.0 O A:HOH315 4.6 15.4 1.0 O4P A:THP202 4.7 9.2 1.0 CA A:ASP21 4.7 7.2 1.0 OG1 A:THR41 4.8 11.8 0.7 C A:ASP21 4.8 7.5 1.0 CG2 A:THR41 4.8 11.7 0.3 OG1 A:THR22 4.8 12.4 0.3 N A:THR22 4.8 8.6 1.0 N A:GLY20 4.8 8.0 1.0 NE A:ARG35 4.9 8.7 1.0 OE2 A:GLU109 4.9 9.9 1.0 P2 A:THP202 4.9 8.6 1.0 O A:HOH301 4.9 15.4 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of Staphylcoccal Nuclease Variant Delta+Phs A109E at Cryogenic Temperature


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 Staphylcoccal Nuclease Variant Delta+Phs A109E at Cryogenic Temperature within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca201 b:8.5 occ:1.00 O B:HOH312 2.3 8.2 1.0 OD1 B:ASP21 2.4 8.3 1.0 OD2 B:ASP19 2.4 9.1 1.0 O B:HOH344 2.4 10.0 1.0 O B:HOH360 2.4 8.0 1.0 O B:HOH353 2.4 16.3 1.0 OD1 B:ASP19 2.8 8.2 1.0 CG B:ASP19 2.9 8.0 1.0 CG B:ASP21 3.3 7.8 1.0 OD2 B:ASP21 3.6 8.0 1.0 O5P B:THP202 4.2 7.1 1.0 N B:ASP21 4.2 6.9 1.0 CB B:ASP19 4.4 7.9 1.0 O B:HOH305 4.4 14.0 1.0 OG1 B:THR22 4.4 11.3 1.0 CB B:ASP21 4.5 7.4 1.0 O B:HOH372 4.6 10.0 1.0 O4P B:THP202 4.7 8.9 1.0 CA B:ASP21 4.7 7.3 1.0 N B:THR22 4.8 8.0 1.0 O B:HOH307 4.8 22.5 1.0 NE B:ARG35 4.8 7.1 1.0 O B:HOH339 4.8 24.5 1.0 C B:ASP21 4.8 8.4 1.0 O B:HOH351 4.8 27.8 1.0 N B:GLY20 4.9 8.2 1.0 OE2 B:GLU109 4.9 9.3 1.0 P2 B:THP202 5.0 8.1 1.0 OG1 B:THR41 5.0 15.9 1.0

L.A.Skerritt, P.C.Bell-Upp, J.L.Schlessman, E.B.Garcia-Moreno. Crystal Structure of Staphylcoccal Nuclease Variant Delta+Phs A109E at Cryogenic Temperature To Be Published.