Calcium in PDB 6eop: DPP8 - Slrflyeg, Space Group 20

All present enzymatic activity of DPP8 - Slrflyeg, Space Group 20:
3.4.14.5;

The structure of DPP8 - Slrflyeg, Space Group 20, PDB code: 6eop was solved by B.R.Ross, R.Huber, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.62 / 2.40
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	162.830, 246.371, 261.191, 90.00, 90.00, 90.00
R / Rfree (%)	21.4 / 23.7

The binding sites of Calcium atom in the DPP8 - Slrflyeg, Space Group 20 (pdb code 6eop). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the DPP8 - Slrflyeg, Space Group 20, PDB code: 6eop:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the DPP8 - Slrflyeg, Space Group 20


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of DPP8 - Slrflyeg, Space Group 20 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca902 b:78.6 occ:1.00 O A:ARG158 2.5 54.6 1.0 O A:HOH1019 2.5 48.3 1.0 OD1 A:ASP278 2.5 59.1 1.0 OH A:TYR280 2.5 47.9 1.0 O A:GLN274 2.6 46.9 1.0 CZ A:TYR280 3.5 48.1 1.0 C A:ARG158 3.6 55.4 1.0 CG A:ASP278 3.7 58.9 1.0 C A:GLN274 3.8 46.5 1.0 O A:GLU275 3.8 48.3 1.0 CE1 A:TYR280 3.8 48.2 1.0 O D:HOH202 4.0 62.7 1.0 CA A:GLU275 4.1 47.2 1.0 C A:GLU275 4.1 47.4 1.0 CA A:ASP278 4.1 52.8 1.0 N A:GLU275 4.4 46.2 1.0 CB A:ASP278 4.4 55.4 1.0 N A:ASP278 4.5 51.0 1.0 CA A:ARG158 4.5 54.7 1.0 N A:LYS159 4.5 58.8 1.0 O A:HOH1070 4.6 50.6 1.0 OD2 A:ASP278 4.6 64.0 1.0 CA A:LYS159 4.7 59.1 1.0 NH1 A:ARG160 4.7 62.1 1.0 CE2 A:TYR280 4.7 48.2 1.0 OE2 A:GLU275 4.9 48.8 1.0 CB A:ARG158 4.9 54.4 1.0 CA A:GLN274 4.9 46.1 1.0

Calcium binding site 2 out of 3 in the DPP8 - Slrflyeg, Space Group 20


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of DPP8 - Slrflyeg, Space Group 20 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca901 b:96.3 occ:1.00 O B:ARG158 2.4 60.2 1.0 OD1 B:ASP278 2.7 56.6 1.0 O B:GLN274 2.8 43.3 1.0 OH B:TYR280 2.8 55.0 1.0 CG B:ASP278 3.6 53.8 1.0 C B:ARG158 3.6 59.0 1.0 O B:GLU275 3.7 44.3 1.0 CZ B:TYR280 3.8 53.3 1.0 C B:GLN274 3.9 43.0 1.0 CE1 B:TYR280 4.0 53.0 1.0 CA B:GLU275 4.1 44.4 1.0 C B:GLU275 4.1 43.0 1.0 OD2 B:ASP278 4.2 55.0 1.0 CA B:ASP278 4.3 49.8 1.0 NH1 B:ARG160 4.4 66.8 1.0 CB B:ASP278 4.4 51.4 1.0 N B:LYS159 4.5 62.2 1.0 N B:GLU275 4.5 43.7 1.0 CA B:ARG158 4.5 57.5 1.0 CA B:LYS159 4.5 64.6 1.0 N B:ASP278 4.6 47.2 1.0 OE2 B:GLU275 4.8 50.5 1.0 CB B:ARG158 5.0 56.6 1.0

Calcium binding site 3 out of 3 in the DPP8 - Slrflyeg, Space Group 20


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of DPP8 - Slrflyeg, Space Group 20 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca901 b:85.5 occ:1.00 O C:ARG158 2.5 58.4 1.0 O C:HOH1042 2.5 55.0 1.0 OD1 C:ASP278 2.6 57.5 1.0 OH C:TYR280 2.6 48.2 1.0 O C:GLN274 2.7 50.2 1.0 CG C:ASP278 3.6 55.9 1.0 C C:ARG158 3.6 60.2 1.0 CZ C:TYR280 3.7 48.8 1.0 C C:GLN274 3.9 49.8 1.0 O C:GLU275 3.9 52.8 1.0 CE1 C:TYR280 3.9 49.4 1.0 CA C:GLU275 4.1 51.8 1.0 C C:GLU275 4.2 52.3 1.0 CA C:ASP278 4.3 53.0 1.0 OD2 C:ASP278 4.4 58.8 1.0 N C:GLU275 4.5 50.6 1.0 CB C:ASP278 4.5 53.5 1.0 N C:LYS159 4.5 62.8 1.0 CA C:ARG158 4.5 58.9 1.0 NH1 C:ARG160 4.6 71.6 1.0 CA C:LYS159 4.6 65.6 1.0 N C:ASP278 4.6 52.2 1.0 O C:HOH1103 4.7 61.3 1.0 OE2 C:GLU275 4.8 55.3 1.0 CE2 C:TYR280 4.9 48.2 1.0 CB C:ARG158 5.0 58.4 1.0

B.Ross, S.Krapp, M.Augustin, R.Kierfersauer, M.Arciniega, R.Geiss-Friedlander, R.Huber. Structures and Mechanism of Dipeptidyl Peptidases 8 and 9, Important Players in Cellular Homeostasis and Cancer. Proc. Natl. Acad. Sci. V. 115 E1437 2018U.S.A..
ISSN: ESSN 1091-6490
PubMed: 29382749
DOI: 10.1073/PNAS.1717565115