Calcium in PDB 3kzp: Crystal Structure of Putative Diguanylate Cyclase/Phosphodiesterase From Listaria Monocytigenes

The structure of Crystal Structure of Putative Diguanylate Cyclase/Phosphodiesterase From Listaria Monocytigenes, PDB code: 3kzp was solved by M.M.Klimecka, M.Chruszcz, M.D.Zimmerman, M.Kudritska, A.Savchenko, A.Edwards, A.Joachimiak, W.Minor, Midwest Center For Structuralgenomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.00
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	59.766, 92.040, 96.210, 90.00, 90.00, 90.00
R / Rfree (%)	18.5 / 23.9

The structure of Crystal Structure of Putative Diguanylate Cyclase/Phosphodiesterase From Listaria Monocytigenes also contains other interesting chemical elements:

Arsenic	(As)	2 atoms
Chlorine	(Cl)	6 atoms

The binding sites of Calcium atom in the Crystal Structure of Putative Diguanylate Cyclase/Phosphodiesterase From Listaria Monocytigenes (pdb code 3kzp). 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 Putative Diguanylate Cyclase/Phosphodiesterase From Listaria Monocytigenes, PDB code: 3kzp:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of Putative Diguanylate Cyclase/Phosphodiesterase From Listaria Monocytigenes


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 Putative Diguanylate Cyclase/Phosphodiesterase From Listaria Monocytigenes within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca240 b:31.8 occ:1.00 OE1 A:GLU106 2.3 22.8 1.0 OD2 A:ASP147 2.3 19.5 1.0 OE2 A:GLU25 2.4 15.6 1.0 OD1 A:ASN78 2.4 12.9 1.0 O A:HOH472 2.6 18.1 1.0 O A:HOH303 2.6 19.4 1.0 CG A:ASP147 3.2 16.6 1.0 CD A:GLU25 3.3 20.2 1.0 CG A:ASN78 3.3 13.5 1.0 CD A:GLU106 3.6 20.4 1.0 ND2 A:ASN78 3.7 13.7 1.0 OD1 A:ASP147 3.7 18.7 1.0 OE1 A:GLU25 3.8 19.9 1.0 O A:HOH485 3.8 29.1 1.0 NZ A:LYS170 3.9 15.7 1.0 O A:HOH368 4.1 27.7 1.0 CB A:GLU106 4.2 12.9 1.0 CB A:ASP147 4.2 13.3 1.0 OE2 A:GLU106 4.4 18.5 1.0 CG A:GLU25 4.5 13.7 1.0 CG A:GLU106 4.5 14.4 1.0 CB A:ASN78 4.6 12.8 1.0 O A:HOH382 5.0 20.4 1.0 O A:HOH304 5.0 55.8 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of Putative Diguanylate Cyclase/Phosphodiesterase From Listaria Monocytigenes


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 Putative Diguanylate Cyclase/Phosphodiesterase From Listaria Monocytigenes within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca237 b:32.7 occ:1.00 OE1 B:GLU106 2.3 19.8 1.0 OD2 B:ASP147 2.3 18.8 1.0 OE2 B:GLU25 2.3 13.9 1.0 OD1 B:ASN78 2.4 13.7 1.0 O B:HOH338 2.5 23.2 1.0 O B:HOH300 2.6 18.1 1.0 CG B:ASP147 3.2 16.4 1.0 CD B:GLU25 3.3 19.4 1.0 CG B:ASN78 3.4 14.7 1.0 CD B:GLU106 3.5 18.0 1.0 OD1 B:ASP147 3.6 21.5 1.0 ND2 B:ASN78 3.6 15.1 1.0 NZ B:LYS170 3.8 14.6 1.0 OE1 B:GLU25 3.9 20.9 1.0 O B:HOH431 4.0 25.2 1.0 CB B:GLU106 4.2 12.3 1.0 CB B:ASP147 4.3 14.2 1.0 OE2 B:GLU106 4.3 19.3 1.0 CG B:GLU106 4.4 13.0 1.0 CG B:GLU25 4.4 15.7 1.0 CB B:ASN78 4.7 12.7 1.0 O B:HOH309 4.9 27.6 1.0

M.M.Klimecka, M.Chruszcz, M.D.Zimmerman, M.Kudritska, A.Savchenko, A.Edwards, A.Joachimiak, W.Minor. Crystal Structure of Putative Diguanylate Cyclase/Phosphodiesterase From Listaria Monocytigenes To Be Published.