Calcium in PDB 7dh6: Crystal Structure of PLRG1

The structure of Crystal Structure of PLRG1, PDB code: 7dh6 was solved by X.Wang, C.Xu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.16 / 2.58
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	68.005, 82.124, 99.388, 90.00, 99.44, 90.00
R / Rfree (%)	22.6 / 27.6

The structure of Crystal Structure of PLRG1 also contains other interesting chemical elements:

Nickel

(Ni)

2 atoms

The binding sites of Calcium atom in the Crystal Structure of PLRG1 (pdb code 7dh6). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Crystal Structure of PLRG1, PDB code: 7dh6:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Crystal Structure of PLRG1


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 PLRG1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca601 b:58.3 occ:1.00 O B:ASP460 2.4 52.1 1.0 O B:ASP432 2.5 41.2 1.0 O B:SER463 2.5 41.8 1.0 O B:HOH724 2.6 48.0 1.0 C B:ASP460 3.6 52.2 1.0 C B:ASP432 3.6 40.6 1.0 C B:SER463 3.7 40.0 1.0 CA B:GLY464 4.3 34.8 1.0 CA B:ASN433 4.4 41.9 1.0 CA B:ASP460 4.4 52.5 1.0 N B:ASN433 4.4 41.5 1.0 N B:GLY464 4.4 37.0 1.0 OD1 B:ASP432 4.5 46.6 1.0 CB B:ASP460 4.5 51.6 1.0 OG B:SER463 4.5 46.8 1.0 CG B:ASP432 4.5 45.3 1.0 N B:SER461 4.6 52.3 1.0 CA B:ASP432 4.6 38.9 1.0 CA B:SER461 4.6 48.7 1.0 CB B:ASP432 4.7 40.9 1.0 N B:SER463 4.7 44.7 1.0 CA B:SER463 4.8 43.7 1.0 OD2 B:ASP432 4.9 48.0 1.0

Calcium binding site 2 out of 3 in the Crystal Structure of PLRG1


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 PLRG1 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca602 b:51.3 occ:1.00 O C:SER463 2.6 43.5 1.0 O C:ASP432 2.7 41.5 1.0 O C:SER461 3.2 64.5 1.0 C C:SER463 3.7 43.1 1.0 C C:ASP432 3.8 39.6 1.0 OD1 C:ASP432 3.9 50.7 1.0 N C:SER463 4.2 54.1 1.0 C C:SER461 4.3 64.6 1.0 CG C:ASP432 4.4 48.4 1.0 CA C:ASN433 4.4 37.3 1.0 N C:ASN433 4.6 37.8 1.0 CA C:GLY464 4.6 38.2 1.0 N C:GLY464 4.6 39.8 1.0 CA C:SER463 4.6 48.2 1.0 CA C:ASP432 4.8 39.5 1.0 OD2 C:ASP432 4.9 49.9 1.0 CB C:ASP432 4.9 43.5 1.0 OG C:SER463 5.0 47.6 1.0

Calcium binding site 3 out of 3 in the Crystal Structure of PLRG1


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of PLRG1 within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca601 b:50.5 occ:1.00 O D:SER463 2.3 46.7 1.0 O D:HOH705 2.5 28.7 1.0 O D:ASP432 2.7 31.6 1.0 O D:SER461 3.0 56.5 1.0 C D:SER463 3.5 42.9 1.0 OD2 D:ASP432 3.6 45.4 1.0 N D:SER463 3.8 53.1 1.0 C D:ASP432 3.9 33.4 1.0 CG D:ASP432 4.2 41.0 1.0 C D:SER461 4.2 56.8 1.0 CA D:SER463 4.3 49.0 1.0 N D:GLY464 4.5 37.6 1.0 OG D:SER463 4.5 51.6 1.0 CA D:GLY464 4.5 36.6 1.0 CA D:ASN433 4.6 34.4 1.0 N D:ASN433 4.7 34.1 1.0 OD1 D:ASP432 4.8 40.1 1.0 C D:GLU462 4.8 55.5 1.0 CA D:GLU462 4.8 54.5 1.0 CA D:ASP432 4.8 34.6 1.0 CB D:ASP432 4.9 36.9 1.0 CB D:SER463 5.0 52.1 1.0

X.Wang, C.Xu. Crystal Structure of PLRG1 To Be Published.