Calcium in PDB 6r7w: Tannerella Forsythia Mature Mirolysin in Complex with A Cleaved Peptide.

The structure of Tannerella Forsythia Mature Mirolysin in Complex with A Cleaved Peptide., PDB code: 6r7w was solved by A.Rodriguez-Banqueri, T.Guevara, M.Ksiazek, J.Potempa, F.X.Gomis-Ruth, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	54.70 / 1.50
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	40.610, 66.490, 96.220, 90.00, 90.00, 90.00
R / Rfree (%)	14.4 / 15.8

The structure of Tannerella Forsythia Mature Mirolysin in Complex with A Cleaved Peptide. also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Calcium atom in the Tannerella Forsythia Mature Mirolysin in Complex with A Cleaved Peptide. (pdb code 6r7w). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Tannerella Forsythia Mature Mirolysin in Complex with A Cleaved Peptide., PDB code: 6r7w:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Tannerella Forsythia Mature Mirolysin in Complex with A Cleaved Peptide.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Tannerella Forsythia Mature Mirolysin in Complex with A Cleaved Peptide. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:9.4 occ:0.90 O A:SER242 2.3 14.1 1.0 O A:TRP236 2.3 12.0 1.0 O A:GLN255 2.4 10.6 1.0 OD2 A:ASP239 2.4 14.2 1.0 O A:GLY256 2.4 11.2 1.0 O A:HOH507 2.4 12.3 1.0 OD1 A:ASP239 2.4 13.4 1.0 CG A:ASP239 2.8 13.6 1.0 C A:GLY256 3.3 11.4 1.0 C A:GLN255 3.5 11.3 1.0 C A:SER242 3.5 16.5 1.0 C A:TRP236 3.5 11.7 1.0 CA A:GLY256 3.6 11.1 1.0 N A:GLY256 4.0 11.8 1.0 N A:SER242 4.1 14.8 1.0 CA A:TRP236 4.2 10.0 1.0 CB A:TRP236 4.3 9.4 1.0 CB A:ASP239 4.3 14.6 1.0 O A:HOH638 4.3 13.5 1.0 CA A:CYS243 4.4 15.9 1.0 N A:CYS243 4.4 15.1 1.0 C A:GLY241 4.4 17.1 1.0 CA A:SER242 4.4 14.1 0.4 CA A:SER242 4.4 14.2 0.6 N A:GLY257 4.5 11.6 1.0 N A:GLY237 4.6 9.3 1.0 O A:GLY245 4.7 15.0 1.0 CD1 A:TRP236 4.7 11.8 1.0 OD1 A:ASN254 4.7 17.5 1.0 CA A:GLY237 4.7 10.8 1.0 C A:CYS243 4.8 16.2 1.0 CA A:GLN255 4.8 9.7 1.0 O A:GLY241 4.8 19.1 1.0 OG A:SER242 4.8 19.7 0.6 N A:GLY245 4.8 14.2 1.0 N A:GLY241 4.8 17.9 1.0 SG A:CYS271 4.8 18.1 1.0 CA A:GLY241 4.9 16.9 1.0 N A:GLN255 4.9 11.3 1.0 CG A:TRP236 4.9 9.0 1.0 N A:ASP239 5.0 15.2 1.0

Calcium binding site 2 out of 2 in the Tannerella Forsythia Mature Mirolysin in Complex with A Cleaved Peptide.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Tannerella Forsythia Mature Mirolysin in Complex with A Cleaved Peptide. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca402 b:9.6 occ:1.00 OD1 A:ASP247 2.4 10.8 1.0 O A:ILE249 2.4 11.2 1.0 O A:HOH655 2.4 16.9 1.0 O A:THR252 2.5 9.7 1.0 O A:HOH621 2.5 10.7 1.0 O A:HOH673 2.5 12.8 1.0 O A:HOH749 2.5 15.2 1.0 OG1 A:THR252 2.5 9.2 1.0 CG A:ASP247 3.4 10.6 1.0 C A:THR252 3.5 10.9 1.0 C A:ILE249 3.6 11.3 1.0 CB A:THR252 3.7 9.3 1.0 OD2 A:ASP247 3.8 10.9 1.0 CA A:THR252 3.9 9.0 1.0 N A:THR252 4.1 8.9 1.0 N A:ILE249 4.1 10.4 1.0 CA A:ILE249 4.3 9.8 1.0 O A:HOH776 4.4 21.1 0.5 O A:PRO253 4.5 10.8 1.0 C A:PRO253 4.5 11.5 1.0 CB A:ILE249 4.5 10.3 1.0 O A:HOH792 4.5 22.2 0.5 N A:ASP247 4.6 10.8 1.0 N A:ALA250 4.6 10.6 1.0 N A:PRO253 4.6 9.4 1.0 O A:HOH638 4.7 13.5 1.0 N A:ASN254 4.7 10.9 1.0 O A:HOH634 4.7 39.5 1.0 CB A:ASP247 4.7 10.8 1.0 CA A:ALA250 4.8 11.2 1.0 O A:ALA250 4.8 14.7 1.0 C A:ALA250 4.8 12.6 1.0 O A:HOH776 4.8 33.3 0.5 O A:ILE235 4.9 11.1 1.0 OG1 A:THR246 4.9 13.6 1.0 CA A:ASN254 4.9 10.6 1.0 CG2 A:THR252 4.9 10.0 1.0 CA A:PRO253 5.0 10.2 1.0 N A:ASN248 5.0 11.1 1.0

T.Guevara, A.Rodriguez-Banqueri, M.Ksiazek, J.Potempa, F.X.Gomis-Ruth. Structure-Based Mechanism of Cysteine-Switch Latency and of Catalysis By Pappalysin-Family Metallopeptidases. Iucrj 2019.
ISSN: ESSN 2052-2525