Calcium in PDB 2v15: Terbium Binding in Streptococcus Suis Dpr Protein

The structure of Terbium Binding in Streptococcus Suis Dpr Protein, PDB code: 2v15 was solved by H.Havukainen, A.C.Papageorgiou, A.Kauko, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.98 / 2.10
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	104.485, 137.715, 142.438, 90.00, 90.00, 90.00
R / Rfree (%)	18.8 / 24.4

The structure of Terbium Binding in Streptococcus Suis Dpr Protein also contains other interesting chemical elements:

Terbium	(Tb)	12 atoms
Chlorine	(Cl)	10 atoms

The binding sites of Calcium atom in the Terbium Binding in Streptococcus Suis Dpr Protein (pdb code 2v15). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Terbium Binding in Streptococcus Suis Dpr Protein, PDB code: 2v15:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Terbium Binding in Streptococcus Suis Dpr Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Terbium Binding in Streptococcus Suis Dpr Protein within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1173 b:58.7 occ:1.00 OE2 B:GLU113 2.6 41.5 1.0 OE1 B:GLU113 2.6 37.5 1.0 CD B:GLU113 3.0 38.4 1.0 CG B:GLU113 4.5 31.5 1.0 CG2 B:THR110 4.7 27.9 1.0 O B:ASN108 4.7 37.1 1.0

Calcium binding site 2 out of 4 in the Terbium Binding in Streptococcus Suis Dpr Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Terbium Binding in Streptococcus Suis Dpr Protein within 5.0Å range: probe atom residue distance (Å) B Occ G:Ca173 b:74.7 occ:1.00 O G:HOH2039 3.2 47.6 1.0 O G:ASN108 4.0 40.5 1.0 OE1 G:GLU113 4.6 39.8 1.0

Calcium binding site 3 out of 4 in the Terbium Binding in Streptococcus Suis Dpr Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Terbium Binding in Streptococcus Suis Dpr Protein within 5.0Å range: probe atom residue distance (Å) B Occ H:Ca1174 b:28.8 occ:0.50 O H:ASN108 3.0 42.1 1.0 C H:ASN108 4.0 40.6 1.0 CA H:ASN108 4.3 40.6 1.0 O H:VAL109 4.7 39.5 1.0 O H:TYR107 4.8 38.8 1.0 ND2 H:ASN108 4.8 45.9 1.0 C H:VAL109 4.9 39.5 1.0 O K:GLY167 4.9 32.6 1.0 CG2 H:THR110 4.9 37.3 1.0 CB H:ASN108 4.9 40.7 1.0 CA H:THR110 5.0 37.6 1.0

Calcium binding site 4 out of 4 in the Terbium Binding in Streptococcus Suis Dpr Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Terbium Binding in Streptococcus Suis Dpr Protein within 5.0Å range: probe atom residue distance (Å) B Occ K:Ca1175 b:36.5 occ:1.00 OD2 K:ASP24 2.4 35.4 1.0 OE2 K:GLU139 2.4 36.3 1.0 CD K:GLU139 3.3 36.2 1.0 CG K:ASP24 3.4 35.0 1.0 CG K:GLU139 3.5 36.6 1.0 CB K:ASP24 3.8 33.2 1.0 N K:ASP24 4.4 33.6 1.0 OE1 K:GLU139 4.5 32.5 1.0 OD1 K:ASP24 4.5 34.6 1.0 O K:HOH2047 4.7 45.9 1.0 CA K:ASP24 4.8 32.8 1.0

H.Havukainen, S.Haataja, A.Kauko, A.T.Pulliainen, A.Salminen, T.Haikarainen, J.Finne, A.C.Papageorgiou. Structural Basis of the Zinc- and Terbium-Mediated Inhibition of Ferroxidase Activity in Dps Ferritin-Like Proteins. Protein Sci. V. 17 1513 2008.
ISSN: ESSN 1469-896X
PubMed: 18552126
DOI: 10.1110/PS.036236.108