Calcium in PDB 1jbc: Concanavalin A

The structure of Concanavalin A, PDB code: 1jbc was solved by S.Parkin, B.Rupp, H.Hope, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	N/A / 1.15
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	61.954, 86.053, 89.079, 90.00, 90.00, 90.00
R / Rfree (%)	n/a / 16.7

The structure of Concanavalin A also contains other interesting chemical elements:

Manganese

(Mn)

1 atom

The binding sites of Calcium atom in the Concanavalin A (pdb code 1jbc). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Concanavalin A, PDB code: 1jbc:

Calcium binding site 1 out of 1 in the Concanavalin A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Concanavalin A within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca239 b:7.6 occ:1.00 OD1 A:ASN14 2.3 9.2 1.0 O A:TYR12 2.4 8.1 1.0 O A:HOH513 2.4 7.4 1.0 OD2 A:ASP19 2.4 8.2 1.0 O A:HOH549 2.4 8.6 1.0 OD1 A:ASP10 2.5 8.2 1.0 OD2 A:ASP10 2.6 8.2 1.0 CG A:ASP10 2.9 6.3 1.0 CG A:ASN14 3.5 8.4 1.0 CG A:ASP19 3.5 7.9 1.0 C A:TYR12 3.6 7.2 1.0 OD1 A:ASP19 4.0 9.2 1.0 N A:ASN14 4.0 9.0 1.0 CB A:ASN14 4.1 8.8 1.0 MN A:MN238 4.2 7.7 1.0 CB A:ASP10 4.4 6.8 1.0 CA A:TYR12 4.4 7.0 1.0 N A:TYR12 4.4 7.9 1.0 ND2 A:ASN14 4.5 8.6 1.0 O A:HOH547 4.5 7.9 1.0 N A:PRO13 4.6 8.2 1.0 CE1 A:HIS24 4.6 7.6 1.0 CB A:TYR12 4.6 7.6 1.0 CA A:PRO13 4.6 9.4 1.0 O A:ASP208 4.6 7.2 1.0 C A:PRO13 4.7 8.7 1.0 CA A:ASN14 4.7 9.2 1.0 CB A:ASP19 4.8 8.0 1.0 OD1 A:ASP208 4.8 8.7 1.0 CB A:ARG228 4.8 7.8 1.0 O A:ARG228 4.8 7.6 1.0 NE2 A:HIS24 4.9 8.0 1.0 CA A:ARG228 4.9 7.3 1.0

S.Parkin, B.Rupp, H.Hope. Atomic Resolution Structure of Concanavalin A at 120 K. Acta Crystallogr.,Sect.D V. 52 1161 1996.
ISSN: ISSN 0907-4449
PubMed: 15299577
DOI: 10.1107/S0907444996009237