Calcium in PDB 5z5l: Crystal Structure of Cona-R5M

The structure of Crystal Structure of Cona-R5M, PDB code: 5z5l was solved by R.T.Hu, J.H.Gan, G.S.Chen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	125.94 / 2.30
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	59.415, 64.086, 126.106, 90.00, 92.90, 90.00
R / Rfree (%)	20.1 / 27.7

The structure of Crystal Structure of Cona-R5M also contains other interesting chemical elements:

Manganese

(Mn)

4 atoms

The binding sites of Calcium atom in the Crystal Structure of Cona-R5M (pdb code 5z5l). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of Cona-R5M, PDB code: 5z5l:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Crystal Structure of Cona-R5M


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-R5M within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca302 b:45.7 occ:1.00 OD2 A:ASP19 1.9 44.2 1.0 OD1 A:ASN14 2.1 51.1 1.0 O A:TYR12 2.1 51.3 1.0 O A:HOH413 2.3 43.2 1.0 O A:HOH408 2.4 38.8 1.0 CG A:ASP19 3.1 50.9 1.0 CG A:ASN14 3.2 48.2 1.0 C A:TYR12 3.3 49.8 1.0 OD1 A:ASP19 3.6 48.6 1.0 N A:ASN14 3.8 49.1 1.0 CB A:ASN14 3.9 46.8 1.0 MN A:MN301 4.0 46.1 1.0 CA A:TYR12 4.2 49.3 1.0 N A:PRO13 4.2 52.8 1.0 ND2 A:ASN14 4.3 46.5 1.0 CB A:ASP19 4.3 53.8 1.0 N A:TYR12 4.3 51.6 1.0 CA A:PRO13 4.4 51.1 1.0 C A:PRO13 4.4 53.5 1.0 CB A:TYR12 4.5 54.4 1.0 CA A:ASN14 4.5 47.8 1.0 O A:HOH409 4.5 36.1 1.0 CB A:ASP10 4.6 46.4 1.0 CE1 A:HIS24 4.6 46.9 1.0 OD2 A:ASP208 4.8 50.5 1.0 CD1 A:TYR12 4.8 53.2 1.0 O A:ASP208 4.9 46.0 1.0 NE2 A:HIS24 4.9 44.5 1.0

Calcium binding site 2 out of 4 in the Crystal Structure of Cona-R5M


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-R5M within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca302 b:50.9 occ:1.00 O B:TYR12 2.2 49.8 1.0 O B:HOH411 2.4 47.7 1.0 OD2 B:ASP19 2.6 43.1 1.0 OD1 B:ASN14 2.7 54.6 1.0 C B:TYR12 3.4 53.6 1.0 CG B:ASN14 3.7 60.1 1.0 CG B:ASP19 3.8 51.8 1.0 N B:ASN14 4.1 55.6 1.0 CB B:ASN14 4.1 52.9 1.0 CA B:TYR12 4.3 54.2 1.0 MN B:MN301 4.3 50.6 1.0 N B:PRO13 4.4 53.3 1.0 OD1 B:ASP19 4.4 47.4 1.0 N B:TYR12 4.4 53.4 1.0 CA B:PRO13 4.4 51.7 1.0 CB B:TYR12 4.5 56.6 1.0 C B:PRO13 4.6 57.6 1.0 CD1 B:TYR12 4.7 62.3 1.0 O B:ASP208 4.7 41.2 1.0 CA B:ASN14 4.7 54.2 1.0 O B:HOH402 4.8 51.2 1.0 CB B:ASP19 4.8 53.5 1.0 OD2 B:ASP208 4.8 47.5 1.0 ND2 B:ASN14 4.9 66.7 1.0 O B:ARG228 4.9 52.1 1.0 CB B:ARG228 4.9 54.6 1.0 CA B:ARG228 4.9 51.8 1.0

Calcium binding site 3 out of 4 in the Crystal Structure of Cona-R5M


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-R5M within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca302 b:51.7 occ:1.00 O C:TYR12 2.2 53.5 1.0 O C:HOH407 2.3 44.5 1.0 OD1 C:ASN14 2.6 51.2 1.0 C C:TYR12 3.4 58.4 1.0 CG C:ASN14 3.6 51.2 1.0 N C:ASN14 4.1 58.1 1.0 CB C:ASN14 4.1 50.6 1.0 CA C:TYR12 4.3 60.1 1.0 MN C:MN301 4.3 47.1 1.0 N C:PRO13 4.4 59.7 1.0 N C:TYR12 4.4 57.8 1.0 CB C:TYR12 4.5 64.5 1.0 CB C:ASP10 4.5 58.4 0.0 CA C:PRO13 4.5 60.6 1.0 C C:PRO13 4.6 61.7 1.0 CE1 C:HIS24 4.6 62.5 1.0 OD2 C:ASP208 4.6 53.9 1.0 CB C:ARG228 4.7 61.6 1.0 O C:ASP208 4.7 45.1 1.0 O C:HOH402 4.7 37.8 1.0 CA C:ASN14 4.7 51.8 1.0 ND2 C:ASN14 4.7 54.6 1.0 CA C:ARG228 4.8 52.2 1.0 CA C:ASP10 4.9 56.1 0.0 O C:ARG228 4.9 52.6 1.0 CD1 C:TYR12 4.9 70.2 1.0 NE2 C:HIS24 4.9 56.5 1.0

Calcium binding site 4 out of 4 in the Crystal Structure of Cona-R5M


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of Cona-R5M within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca302 b:49.2 occ:1.00 O D:TYR12 2.0 51.7 1.0 O D:HOH417 2.1 50.0 1.0 OD1 D:ASN14 2.5 54.2 1.0 O D:HOH407 2.6 56.3 1.0 C D:TYR12 3.2 52.5 1.0 CG D:ASN14 3.5 55.5 1.0 N D:ASN14 3.8 55.9 1.0 CB D:ASN14 4.0 55.8 1.0 MN D:MN301 4.1 50.4 1.0 CA D:TYR12 4.1 56.0 1.0 N D:PRO13 4.2 55.8 1.0 CB D:ASP19 4.3 55.5 1.0 CA D:PRO13 4.3 58.1 1.0 CB D:TYR12 4.3 62.4 1.0 N D:TYR12 4.3 50.9 1.0 C D:PRO13 4.5 63.5 1.0 CA D:ASN14 4.5 55.1 1.0 ND2 D:ASN14 4.6 48.4 1.0 CB D:ASP10 4.7 54.5 1.0 CB D:ARG228 4.7 53.9 1.0 CD1 D:TYR12 4.7 71.0 1.0 O D:HOH404 4.7 34.7 1.0 CA D:ARG228 4.8 49.6 1.0 OD2 D:ASP208 4.8 56.7 1.0 O D:ASP208 5.0 43.2 1.0

R.T.Hu, J.H.Gan, G.S.Chen. Crystal Structure of Cona-R5M To Be Published.