Calcium in PDB 5h7w: Crystal Structure of 5'-Nucleotidase From Venom of Naja Atra

The structure of Crystal Structure of 5'-Nucleotidase From Venom of Naja Atra, PDB code: 5h7w was solved by C.Chang, C.-C.Lin, W.-G.Wu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.98 / 1.90
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	53.089, 68.149, 139.815, 90.00, 95.73, 90.00
R / Rfree (%)	15.5 / 19.7

The structure of Crystal Structure of 5'-Nucleotidase From Venom of Naja Atra also contains other interesting chemical elements:

Zinc

(Zn)

4 atoms

The binding sites of Calcium atom in the Crystal Structure of 5'-Nucleotidase From Venom of Naja Atra (pdb code 5h7w). 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 5'-Nucleotidase From Venom of Naja Atra, PDB code: 5h7w:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of 5'-Nucleotidase From Venom of Naja Atra


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 5'-Nucleotidase From Venom of Naja Atra within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca607 b:26.6 occ:1.00 O A:GLY298 2.3 25.7 1.0 O A:ASN213 2.4 30.6 1.0 O A:HOH767 2.4 28.1 1.0 OD1 A:ASP237 2.5 22.8 1.0 O A:HOH749 2.5 20.7 1.0 O A:HOH902 2.5 21.1 1.0 OD2 A:ASP237 2.5 27.6 1.0 CG A:ASP237 2.8 25.7 1.0 C A:GLY298 3.3 26.4 1.0 C A:ASN213 3.5 30.1 1.0 CA A:GLY298 4.0 27.4 1.0 O A:GLY235 4.2 27.6 1.0 N A:LYS214 4.3 24.6 1.0 CA A:LYS214 4.3 27.9 1.0 N A:LYS299 4.3 32.2 1.0 CB A:ASP237 4.3 25.0 1.0 CA A:ASN213 4.4 30.3 1.0 O A:HOH913 4.6 28.1 1.0 O A:HOH775 4.6 27.5 1.0 CA A:LYS299 4.6 29.8 1.0 O A:LYS297 4.6 33.3 1.0 CB A:ASN213 4.7 33.6 1.0 N A:ILE215 4.8 23.7 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of 5'-Nucleotidase From Venom of Naja Atra


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 5'-Nucleotidase From Venom of Naja Atra within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca606 b:15.2 occ:1.00 O B:GLY298 2.4 20.1 1.0 O B:ASN213 2.4 15.4 1.0 O B:HOH1012 2.4 18.5 1.0 O B:HOH824 2.4 15.0 1.0 OD2 B:ASP237 2.4 12.3 1.0 OD1 B:ASP237 2.5 13.0 1.0 O B:HOH832 2.5 15.0 1.0 CG B:ASP237 2.8 13.3 1.0 C B:GLY298 3.4 19.2 1.0 C B:ASN213 3.5 16.3 1.0 CA B:GLY298 4.0 16.3 1.0 O B:GLY235 4.1 14.2 1.0 CA B:LYS214 4.3 12.0 1.0 O B:HOH1170 4.3 24.9 1.0 N B:LYS214 4.3 12.9 1.0 CB B:ASP237 4.3 12.9 1.0 N B:LYS299 4.4 18.1 1.0 O B:HOH1001 4.4 21.5 1.0 O B:HOH1045 4.4 28.8 1.0 CA B:ASN213 4.4 17.1 1.0 O B:HOH886 4.6 11.0 1.0 O B:HOH1168 4.6 34.8 1.0 O B:LYS297 4.6 20.0 1.0 CA B:LYS299 4.7 18.8 1.0 O B:HOH866 4.7 18.9 1.0 N B:ILE215 4.7 14.9 1.0 NH1 B:ARG273 4.8 25.8 1.0 CB B:ASN213 4.8 18.3 1.0 C B:GLY235 5.0 16.1 1.0

C.Chang, C.-C.Lin, W.-G.Wu. Crystal Strucuture of Taiwan Cobra (Naja Atra) Venom 5'-Nucleotidase at 1.9 Angstroms Resolution. To Be Published.