Calcium in PDB 5z5p: Crystal Structure of Cona-R3M

The structure of Crystal Structure of Cona-R3M, PDB code: 5z5p was solved by G.S.Chen, J.H.Gan, R.T.Hu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	58.74 / 1.40
Space group	P 2 21 21
Cell size a, b, c (Å), α, β, γ (°)	58.742, 61.945, 115.960, 90.00, 90.00, 90.00
R / Rfree (%)	19.3 / 24.1

The structure of Crystal Structure of Cona-R3M also contains other interesting chemical elements:

Manganese

(Mn)

2 atoms

The binding sites of Calcium atom in the Crystal Structure of Cona-R3M (pdb code 5z5p). 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 Cona-R3M, PDB code: 5z5p:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Crystal Structure of Cona-R3M


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 Cona-R3M within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca302 b:8.4 occ:1.00 ND2 A:ASN14 2.3 7.4 1.0 OD2 A:ASP10 2.4 9.8 1.0 O A:TYR12 2.4 9.3 1.0 O A:HOH441 2.5 8.3 1.0 O A:HOH467 2.5 8.9 1.0 OD1 A:ASP10 2.5 8.7 1.0 CG A:ASP10 2.8 10.8 1.0 OD2 A:ASP19 2.9 9.6 1.0 CG A:ASN14 3.6 10.1 1.0 C A:TYR12 3.6 9.8 1.0 N A:ASN14 4.0 11.6 1.0 CG A:ASP19 4.0 10.2 1.0 CB A:ASN14 4.1 10.0 1.0 MN A:MN301 4.2 9.4 1.0 CB A:ASP10 4.3 9.9 1.0 N A:TYR12 4.4 9.5 1.0 CA A:TYR12 4.4 11.2 1.0 CA A:PRO13 4.5 11.8 1.0 O A:HOH438 4.5 10.6 1.0 CB A:ASP19 4.5 11.2 1.0 N A:PRO13 4.5 11.6 1.0 OD1 A:ASN14 4.6 11.2 1.0 C A:PRO13 4.6 12.0 1.0 CB A:TYR12 4.6 9.9 1.0 CE1 A:HIS24 4.6 11.9 1.0 OD2 A:ASP208 4.7 7.4 1.0 CA A:ASN14 4.7 11.6 1.0 O A:ARG228 4.8 6.8 1.0 CB A:ARG228 4.9 6.6 1.0 CD2 A:TYR12 4.9 10.0 1.0 NE2 A:HIS24 4.9 10.9 1.0 CA A:ARG228 4.9 6.7 1.0 O A:ASP208 5.0 7.3 1.0

Calcium binding site 2 out of 3 in the Crystal Structure of Cona-R3M


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 Cona-R3M within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca302 b:13.7 occ:1.00 OD1 B:ASN14 2.4 16.1 1.0 O B:HOH442 2.4 13.5 1.0 O B:TYR12 2.4 15.8 1.0 OD2 B:ASP10 2.4 13.9 1.0 OD1 B:ASP10 2.4 13.8 1.0 O B:HOH462 2.5 13.6 1.0 CG B:ASP10 2.8 14.4 1.0 OD2 B:ASP19 2.9 14.4 1.0 CG B:ASN14 3.5 16.6 1.0 C B:TYR12 3.6 16.7 1.0 N B:ASN14 4.0 17.9 1.0 CG B:ASP19 4.1 15.6 1.0 CB B:ASN14 4.1 16.6 1.0 MN B:MN304 4.2 13.8 1.0 CB B:ASP10 4.3 14.1 1.0 CA B:TYR12 4.4 15.3 1.0 N B:TYR12 4.5 15.7 1.0 CA B:PRO13 4.5 18.0 1.0 O B:HOH446 4.6 16.6 1.0 N B:PRO13 4.6 14.8 1.0 ND2 B:ASN14 4.6 14.8 1.0 C B:PRO13 4.6 18.4 1.0 CB B:TYR12 4.6 16.0 1.0 CB B:ASP19 4.6 18.6 1.0 CE1 B:HIS24 4.7 14.2 1.0 O B:ARG228 4.7 12.4 1.0 CA B:ASN14 4.7 18.9 1.0 CB B:ARG228 4.7 13.0 1.0 CA B:ARG228 4.8 11.4 1.0 OD2 B:ASP208 4.8 12.9 1.0 CD2 B:TYR12 4.9 19.0 1.0 O B:ASP208 5.0 11.9 1.0

Calcium binding site 3 out of 3 in the Crystal Structure of Cona-R3M


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 Cona-R3M within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca303 b:14.9 occ:1.00 OH B:TYR176 2.9 10.6 1.0 O B:HOH519 3.1 14.6 1.0 CZ B:TYR176 3.7 11.2 1.0 CE1 B:TYR176 3.9 9.5 1.0 CE2 B:TYR176 4.8 11.7 1.0 O B:HOH425 4.9 12.4 1.0

G.S.Chen, J.H.Gan, R.T.Hu. Crystal Structure of Cona-R3M To Be Published.