Calcium in PDB 8url: The Apo Nanj Structure From Clostridium Perfringens

The structure of The Apo Nanj Structure From Clostridium Perfringens, PDB code: 8url was solved by B.J.Medley, A.B.Boraston, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	22.89 / 2.20
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	66.226, 48.804, 73.324, 90, 93.95, 90
R / Rfree (%)	20.1 / 24.9

The binding sites of Calcium atom in the The Apo Nanj Structure From Clostridium Perfringens (pdb code 8url). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the The Apo Nanj Structure From Clostridium Perfringens, PDB code: 8url:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the The Apo Nanj Structure From Clostridium Perfringens


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Apo Nanj Structure From Clostridium Perfringens within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca901 b:43.4 occ:1.00 O A:GLU697 2.3 30.0 1.0 O A:ASN668 2.3 28.5 1.0 OE1 A:GLU697 2.4 27.7 1.0 O A:HOH1060 2.5 29.7 1.0 O A:GLY670 2.5 31.2 1.0 N A:TYR699 3.1 27.8 1.0 CD A:GLU697 3.1 29.3 1.0 C A:GLU697 3.4 29.6 1.0 CA A:TYR699 3.5 27.7 1.0 C A:ASN668 3.5 27.6 1.0 OE2 A:GLU697 3.6 26.9 1.0 C A:GLY670 3.7 31.0 1.0 CB A:GLU697 3.9 28.7 1.0 CB A:TYR699 3.9 26.4 1.0 C A:PRO698 4.0 28.3 1.0 CG A:GLU697 4.0 28.4 1.0 N A:GLY670 4.1 29.2 1.0 N A:ASN668 4.2 28.0 1.0 CD1 A:TYR699 4.2 29.1 1.0 N A:PRO698 4.2 28.0 1.0 C A:THR669 4.2 29.7 1.0 CA A:PRO698 4.3 25.9 1.0 CA A:GLU697 4.3 27.4 1.0 CA A:THR669 4.4 29.2 1.0 N A:THR669 4.4 28.1 1.0 CA A:ASN668 4.5 28.8 1.0 OD1 A:ASN668 4.5 27.7 1.0 CG A:TYR699 4.6 27.5 1.0 CA A:GLY670 4.6 28.9 1.0 CG A:ASN668 4.6 27.4 1.0 O A:HOH1062 4.7 34.2 1.0 N A:SER671 4.7 29.0 1.0 ND2 A:ASN668 4.7 28.2 1.0 O A:THR669 4.8 30.4 1.0 CA A:SER671 4.8 29.1 1.0 C A:SER671 4.8 30.4 1.0 C A:TYR699 4.9 28.9 1.0 O A:SER671 5.0 30.7 1.0 O A:PRO698 5.0 31.3 1.0

Calcium binding site 2 out of 2 in the The Apo Nanj Structure From Clostridium Perfringens


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Apo Nanj Structure From Clostridium Perfringens within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca902 b:45.3 occ:1.00 OD1 A:ASP431 2.2 29.0 1.0 OD1 A:ASN409 2.4 30.0 1.0 O A:HOH1025 2.4 25.5 1.0 O A:TYR432 2.4 24.5 1.0 OD1 A:ASP411 2.6 27.2 1.0 O A:HOH1045 2.6 28.4 1.0 CG A:ASP431 3.4 32.6 1.0 CG A:ASN409 3.4 27.8 1.0 N A:TYR432 3.4 28.2 1.0 C A:TYR432 3.5 27.7 1.0 CG A:ASP411 3.6 27.8 1.0 O A:GLY434 3.7 25.9 1.0 C A:ASP431 3.9 31.0 1.0 OD2 A:ASP411 3.9 29.4 1.0 ND2 A:ASN409 3.9 26.2 1.0 CA A:TYR432 4.0 28.1 1.0 CA A:ASP431 4.0 28.7 1.0 OD2 A:ASP431 4.1 38.2 1.0 CB A:ASP431 4.3 28.5 1.0 O A:SER436 4.3 30.5 1.0 N A:PRO433 4.6 27.6 1.0 CB A:ASN409 4.6 25.3 1.0 O A:ILE410 4.7 26.4 1.0 C A:PRO433 4.7 27.1 1.0 O A:ASP431 4.7 31.9 1.0 CB A:TYR432 4.8 27.8 1.0 O A:PRO433 4.8 28.3 1.0 C A:GLY434 4.9 26.8 1.0 C A:ASN409 4.9 25.6 1.0 CA A:ASN409 4.9 26.4 1.0 CB A:ASP411 4.9 28.0 1.0 C A:ILE410 4.9 25.7 1.0 N A:GLY434 5.0 25.9 1.0 CA A:PRO433 5.0 26.7 1.0 N A:ILE410 5.0 24.9 1.0

B.J.Medley, K.E.Low, J.M.Garber, T.E.Gray, L.Liu, L.Klassen, O.B.Fordwour, G.D.Inglis, G.J.Boons, W.F.Zandberg, D.W.Abbott. The Apo Structure of Nanj From Clostridium Perfringens To Be Published.