Calcium in PDB 5y8x: Crystal Structure of Bacillus Licheniformis Gamma Glutamyl Transpeptidase with Azaserine

All present enzymatic activity of Crystal Structure of Bacillus Licheniformis Gamma Glutamyl Transpeptidase with Azaserine:
2.3.2.2;

The structure of Crystal Structure of Bacillus Licheniformis Gamma Glutamyl Transpeptidase with Azaserine, PDB code: 5y8x was solved by S.Kumari, M.Goel, R.Pal, R.Gupta, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.12 / 1.97
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	59.164, 60.016, 74.781, 90.00, 100.42, 90.00
R / Rfree (%)	14.3 / 19.4

The binding sites of Calcium atom in the Crystal Structure of Bacillus Licheniformis Gamma Glutamyl Transpeptidase with Azaserine (pdb code 5y8x). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Crystal Structure of Bacillus Licheniformis Gamma Glutamyl Transpeptidase with Azaserine, PDB code: 5y8x:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Crystal Structure of Bacillus Licheniformis Gamma Glutamyl Transpeptidase with Azaserine


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 Bacillus Licheniformis Gamma Glutamyl Transpeptidase with Azaserine within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:60.2 occ:1.00 O A:HOH657 2.1 33.3 1.0 O A:HOH742 2.2 37.9 1.0 O A:HOH703 2.2 34.9 1.0 OD1 A:ASP125 2.3 38.8 1.0 CG A:ASP125 3.4 36.9 1.0 O A:HOH694 3.8 57.4 1.0 O A:GLU124 4.1 34.8 1.0 CA A:ASP125 4.1 33.0 1.0 CB A:ASP125 4.2 35.0 1.0 OD2 A:ASP125 4.4 39.4 1.0 OE2 A:GLU124 4.5 39.9 1.0 N A:ASP125 4.6 30.8 1.0 C A:GLU124 4.6 30.1 1.0 CG A:GLU124 5.0 32.9 1.0

Calcium binding site 2 out of 3 in the Crystal Structure of Bacillus Licheniformis Gamma Glutamyl Transpeptidase with Azaserine


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 Bacillus Licheniformis Gamma Glutamyl Transpeptidase with Azaserine within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca601 b:37.2 occ:1.00 O A:HOH667 2.1 18.3 1.0 OE2 B:GLU498 2.1 19.0 1.0 O B:HOH733 2.1 18.2 1.0 O B:HOH736 2.2 19.6 1.0 NE2 A:HIS277 2.3 20.4 1.0 CD B:GLU498 3.0 19.3 1.0 CE1 A:HIS277 3.2 21.2 1.0 CD2 A:HIS277 3.3 20.9 1.0 OE1 B:GLU498 3.3 22.4 1.0 O B:HOH758 4.2 23.4 1.0 ND1 A:HIS305 4.2 22.3 1.0 O A:HOH644 4.3 32.6 1.0 O B:GLU498 4.3 19.0 1.0 CG B:GLU498 4.3 18.3 1.0 ND1 A:HIS277 4.3 19.7 1.0 CG A:HIS277 4.4 20.6 1.0 CA B:GLU498 4.4 18.9 1.0 CB B:GLU498 4.6 18.9 1.0 OG A:SER307 4.7 21.0 1.0 CE1 A:HIS305 4.8 21.6 1.0 C B:GLU498 4.9 19.9 1.0

Calcium binding site 3 out of 3 in the Crystal Structure of Bacillus Licheniformis Gamma Glutamyl Transpeptidase with Azaserine


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 Bacillus Licheniformis Gamma Glutamyl Transpeptidase with Azaserine within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca602 b:38.7 occ:1.00 O B:HOH704 2.1 17.9 1.0 O B:HOH765 2.2 20.9 1.0 O B:HOH729 2.2 19.4 1.0 O B:HOH743 2.2 23.9 1.0 O B:HOH791 2.2 25.1 1.0 OE2 B:GLU523 2.3 18.4 1.0 CD B:GLU523 2.9 18.6 1.0 OE1 B:GLU523 3.0 19.6 1.0 OD1 B:ASP568 4.0 21.7 1.0 CG B:GLU523 4.3 19.9 1.0 O B:GLU508 4.3 20.4 1.0 O B:HOH762 4.3 29.9 1.0 O B:ILE548 4.4 18.0 1.0 O B:ILE507 4.4 19.0 1.0 O B:HOH725 4.4 28.4 1.0 OD2 B:ASP568 4.4 21.1 1.0 OE1 B:GLU508 4.7 23.3 1.0 CG B:ASP568 4.7 21.7 1.0 CZ B:ARG511 4.7 20.9 1.0 OD1 B:ASP547 4.7 25.4 1.0 CB B:SER570 4.8 21.9 1.0 NH1 B:ARG511 4.8 22.1 1.0 CB B:GLU523 4.8 19.8 1.0 N B:ILE548 4.9 19.4 1.0 NH2 B:ARG511 4.9 23.4 1.0 C B:GLU508 4.9 19.6 1.0 NE B:ARG511 4.9 19.8 1.0 CA B:GLU508 5.0 19.6 1.0

M.Goel, S.Kumari, R.Gupta. Crystal Structure of Bacillus Licheniformis Gamma Glutamyl Transpeptidase with Azaserine To Be Published.