Calcium in PDB 1y1x: Structural Analysis of A Homolog of Programmed Cell Death 6 Protein From Leishmania Major Friedlin

The structure of Structural Analysis of A Homolog of Programmed Cell Death 6 Protein From Leishmania Major Friedlin, PDB code: 1y1x was solved by M.A.Robien, W.G.J.Hol, Structural Genomics Of Pathogenic Protozoaconsortium (Sgpp), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.47 / 1.95
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	86.754, 92.945, 52.137, 90.00, 90.00, 90.00
R / Rfree (%)	18.7 / 23.3

The binding sites of Calcium atom in the Structural Analysis of A Homolog of Programmed Cell Death 6 Protein From Leishmania Major Friedlin (pdb code 1y1x). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Structural Analysis of A Homolog of Programmed Cell Death 6 Protein From Leishmania Major Friedlin, PDB code: 1y1x:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Structural Analysis of A Homolog of Programmed Cell Death 6 Protein From Leishmania Major Friedlin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structural Analysis of A Homolog of Programmed Cell Death 6 Protein From Leishmania Major Friedlin within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca201 b:18.6 occ:1.00 OD1 A:ASP37 2.3 24.1 1.0 OD1 A:ASP39 2.4 18.9 1.0 O A:HOH508 2.4 22.3 1.0 OE1 A:GLU48 2.4 21.5 1.0 O A:ALA43 2.4 22.4 1.0 OG A:SER41 2.5 18.7 1.0 OE2 A:GLU48 2.6 20.9 1.0 CD A:GLU48 2.8 27.3 1.0 CG A:ASP39 3.3 26.9 1.0 OD2 A:ASP39 3.5 24.5 1.0 CG A:ASP37 3.5 18.9 1.0 CB A:SER41 3.6 23.7 1.0 C A:ALA43 3.6 22.4 1.0 N A:SER41 4.2 25.1 1.0 O A:HOH513 4.2 23.9 1.0 CG A:GLU48 4.3 26.3 1.0 OD2 A:ASP37 4.4 17.9 1.0 N A:ALA43 4.4 23.6 1.0 CA A:ASP37 4.4 17.9 1.0 CA A:SER41 4.4 22.4 1.0 CB A:ASP37 4.4 19.3 1.0 CA A:ILE44 4.4 22.4 1.0 N A:SER45 4.5 23.4 1.0 N A:ILE44 4.5 20.2 1.0 CB A:ASP39 4.6 18.8 1.0 N A:ASP39 4.6 17.1 1.0 CA A:ALA43 4.6 22.3 1.0 C A:ASP37 4.7 15.8 1.0 N A:GLY42 4.8 21.7 1.0 C A:ILE44 4.9 21.0 1.0 N A:GLY40 4.9 21.7 1.0 N A:THR38 4.9 19.4 1.0 C A:SER41 4.9 24.0 1.0 CA A:ASP39 4.9 17.0 1.0 OG A:SER45 5.0 22.2 1.0

Calcium binding site 2 out of 4 in the Structural Analysis of A Homolog of Programmed Cell Death 6 Protein From Leishmania Major Friedlin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structural Analysis of A Homolog of Programmed Cell Death 6 Protein From Leishmania Major Friedlin within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca202 b:44.9 occ:1.00 O A:HOH554 2.1 30.8 1.0 OD1 A:ASP73 2.3 32.7 1.0 OE1 A:GLU84 2.4 27.9 1.0 OD1 A:ASN75 2.4 49.7 1.0 O A:GLU79 2.6 23.4 1.0 OE2 A:GLU84 2.7 32.3 1.0 OG A:SER77 2.8 41.6 1.0 CD A:GLU84 2.9 33.3 1.0 CG A:ASN75 3.5 53.5 1.0 CG A:ASP73 3.5 31.3 1.0 C A:GLU79 3.8 25.4 1.0 CB A:SER77 3.8 41.7 1.0 O A:HOH682 3.8 45.4 1.0 N A:SER77 4.1 42.1 1.0 ND2 A:ASN75 4.1 50.0 1.0 OG1 A:THR81 4.2 25.5 1.0 CA A:ASP73 4.3 33.0 1.0 OD2 A:ASP73 4.3 33.5 1.0 N A:ASN75 4.3 45.4 1.0 CB A:ASP73 4.4 32.7 1.0 CG A:GLU84 4.4 29.6 1.0 N A:THR81 4.5 26.6 1.0 C A:ASP73 4.5 36.9 1.0 CA A:SER77 4.5 40.3 1.0 CA A:ILE80 4.5 24.5 1.0 N A:HIS76 4.5 43.1 1.0 N A:ILE80 4.6 25.7 1.0 N A:GLU79 4.6 24.9 1.0 CB A:ASN75 4.6 50.9 1.0 N A:LYS74 4.6 38.5 1.0 C A:ASN75 4.7 45.4 1.0 CA A:ASN75 4.8 46.1 1.0 CA A:GLU79 4.8 24.8 1.0 CG2 A:THR81 4.9 28.2 1.0 N A:GLY78 4.9 34.9 1.0 C A:ILE80 5.0 24.6 1.0 O A:ASP73 5.0 32.4 1.0

Calcium binding site 3 out of 4 in the Structural Analysis of A Homolog of Programmed Cell Death 6 Protein From Leishmania Major Friedlin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structural Analysis of A Homolog of Programmed Cell Death 6 Protein From Leishmania Major Friedlin within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca211 b:21.0 occ:1.00 OD1 B:ASP37 2.3 26.9 1.0 O B:ALA43 2.4 23.5 1.0 OD1 B:ASP39 2.4 21.9 1.0 OE2 B:GLU48 2.4 24.9 1.0 OE1 B:GLU48 2.4 24.8 1.0 O B:HOH558 2.5 31.6 1.0 OG B:SER41 2.6 21.6 1.0 CD B:GLU48 2.8 25.0 1.0 CG B:ASP39 3.3 29.5 1.0 CG B:ASP37 3.4 25.7 1.0 C B:ALA43 3.6 26.6 1.0 CB B:SER41 3.6 26.2 1.0 OD2 B:ASP39 3.7 28.7 1.0 N B:SER41 4.0 27.8 1.0 CA B:ASP37 4.2 24.1 1.0 CG B:GLU48 4.3 24.9 1.0 O B:HOH532 4.3 26.5 1.0 OD2 B:ASP37 4.3 22.3 1.0 CB B:ASP37 4.3 23.2 1.0 N B:ALA43 4.4 27.6 1.0 CA B:SER41 4.4 26.4 1.0 N B:ASP39 4.4 20.8 1.0 CA B:ILE44 4.4 26.6 1.0 N B:ILE44 4.5 26.4 1.0 C B:ASP37 4.5 18.1 1.0 CB B:ASP39 4.6 25.9 1.0 CA B:ALA43 4.6 24.7 1.0 N B:SER45 4.6 29.9 1.0 N B:GLY40 4.6 23.7 1.0 N B:THR38 4.7 22.4 1.0 CA B:ASP39 4.8 24.8 1.0 N B:GLY42 4.9 26.6 1.0 O B:ASP37 4.9 26.2 1.0 C B:ASP39 4.9 23.4 1.0 O B:HOH543 4.9 28.6 1.0 C B:SER41 5.0 24.6 1.0 C B:ILE44 5.0 30.1 1.0

Calcium binding site 4 out of 4 in the Structural Analysis of A Homolog of Programmed Cell Death 6 Protein From Leishmania Major Friedlin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structural Analysis of A Homolog of Programmed Cell Death 6 Protein From Leishmania Major Friedlin within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca212 b:37.7 occ:1.00 O B:HOH597 2.2 34.5 1.0 OD1 B:ASP73 2.2 31.8 1.0 OG B:SER77 2.4 41.1 1.0 O B:GLU79 2.4 30.6 1.0 OE1 B:GLU84 2.5 30.2 1.0 OD1 B:ASN75 2.6 48.2 1.0 OE2 B:GLU84 2.7 43.3 1.0 CD B:GLU84 2.9 36.2 1.0 CG B:ASP73 3.4 31.8 1.0 CG B:ASN75 3.4 50.6 1.0 CB B:SER77 3.5 42.7 1.0 C B:GLU79 3.7 29.2 1.0 ND2 B:ASN75 3.7 44.6 1.0 N B:SER77 3.8 42.8 1.0 O B:HOH637 4.0 39.4 1.0 OD2 B:ASP73 4.1 36.2 1.0 CA B:SER77 4.2 42.8 1.0 CB B:ASP73 4.3 32.6 1.0 CA B:ASP73 4.3 33.1 1.0 OG1 B:THR81 4.4 29.8 1.0 N B:GLU79 4.4 33.9 1.0 CG B:GLU84 4.4 36.0 1.0 CA B:ILE80 4.5 30.1 1.0 N B:ILE80 4.5 30.6 1.0 N B:THR81 4.5 28.6 1.0 N B:ASN75 4.5 46.5 1.0 C B:ASP73 4.6 39.4 1.0 N B:GLY78 4.6 39.7 1.0 N B:HIS76 4.6 49.6 1.0 CA B:GLU79 4.7 29.2 1.0 CB B:ASN75 4.7 51.4 1.0 C B:SER77 4.7 42.5 1.0 N B:LYS74 4.8 42.8 1.0 C B:ASN75 4.9 50.1 1.0 CA B:ASN75 4.9 50.0 1.0 C B:HIS76 5.0 47.0 1.0

M.A.Robien, W.G.J.Hol, Structural Genomics Of Pathogenic Protozoa Consortium (Sgpp). Structural Analysis of A Homolog of Programmed Cell Death 6 Protein From Leishmania Major Friedlin To Be Published.