Calcium in PDB 5ukh: Structure of Telc From Streptococcus Intermedius B196

The structure of Structure of Telc From Streptococcus Intermedius B196, PDB code: 5ukh was solved by J.C.Whitney, M.Q.Ching, D.Bryant, J.D.Mougous, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.20 / 1.98
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	127.383, 132.689, 58.258, 90.00, 90.00, 90.00
R / Rfree (%)	22.2 / 24.5

The binding sites of Calcium atom in the Structure of Telc From Streptococcus Intermedius B196 (pdb code 5ukh). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Structure of Telc From Streptococcus Intermedius B196, PDB code: 5ukh:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Structure of Telc From Streptococcus Intermedius B196


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of Telc From Streptococcus Intermedius B196 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca601 b:38.2 occ:1.00 O A:HOH719 1.9 38.0 1.0 OD2 A:ASP401 2.3 27.1 1.0 OD1 A:ASP455 2.4 40.0 1.0 O A:HOH752 2.6 33.3 1.0 OD2 A:ASP454 2.6 39.3 1.0 OD2 A:ASP455 2.8 41.2 1.0 O A:HOH810 2.8 35.9 1.0 CG A:ASP455 2.9 39.6 1.0 CG A:ASP401 3.4 37.0 1.0 CG A:ASP454 3.5 39.3 1.0 CB A:ASP401 3.8 27.2 1.0 ND1 A:HIS404 3.9 43.7 1.0 OD1 A:ASP454 4.0 42.4 1.0 O A:HOH755 4.3 34.6 1.0 CE1 A:HIS343 4.3 40.0 1.0 CB A:ASP455 4.4 38.7 1.0 OD1 A:ASP401 4.5 30.2 1.0 O A:HOH786 4.6 46.7 1.0 O A:HIS343 4.6 38.7 1.0 CG A:HIS404 4.6 38.0 1.0 CB A:HIS404 4.6 33.3 1.0 ND1 A:HIS343 4.6 38.1 1.0 CB A:ASP454 4.7 42.0 1.0 CE1 A:HIS404 4.7 44.5 1.0 O A:HOH721 4.7 52.8 1.0 N A:ASP455 4.8 38.0 1.0 O A:HOH849 4.9 40.6 1.0 OH A:TYR282 4.9 35.8 1.0 CA A:ASP455 4.9 40.9 1.0

Calcium binding site 2 out of 3 in the Structure of Telc From Streptococcus Intermedius B196


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of Telc From Streptococcus Intermedius B196 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca602 b:47.4 occ:0.50 O A:HOH714 2.2 32.3 0.5 O A:HOH831 2.4 50.5 1.0 O A:HOH763 2.4 39.6 1.0 O A:LYS499 2.4 48.3 1.0 C A:LYS499 3.5 44.7 1.0 CA A:LYS499 4.1 44.6 1.0 OD1 A:ASP502 4.3 60.6 1.0 N A:ASN500 4.5 43.2 1.0 C A:ASN500 4.7 44.7 1.0 CA A:ASN500 4.7 43.8 1.0 O A:LEU498 4.7 45.8 1.0 O A:ASN500 4.8 46.4 1.0 CB A:LYS499 5.0 51.1 1.0

Calcium binding site 3 out of 3 in the Structure of Telc From Streptococcus Intermedius B196


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structure of Telc From Streptococcus Intermedius B196 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca603 b:0.8 occ:0.50 OD1 A:ASN534 2.6 74.1 1.0 CG A:ASN534 3.6 65.0 1.0 CB A:ASN534 3.9 63.9 1.0 CA A:ASN534 4.5 65.4 1.0 ND2 A:ASN534 4.7 60.8 1.0 O A:ASN534 5.0 61.7 1.0

J.C.Whitney, S.B.Peterson, J.Kim, M.Pazos, A.J.Verster, M.C.Radey, H.D.Kulasekara, M.Q.Ching, N.P.Bullen, D.Bryant, Y.A.Goo, M.G.Surette, E.Borenstein, W.Vollmer, J.D.Mougous. A Broadly Distributed Toxin Family Mediates Contact-Dependent Antagonism Between Gram-Positive Bacteria. Elife V. 6 2017.
ISSN: ESSN 2050-084X
PubMed: 28696203
DOI: 10.7554/ELIFE.26938