Calcium in PDB 7dch: Alpha-Glucosidase From Weissella Cibaria Bbk-1 Bound with Acarbose

The structure of Alpha-Glucosidase From Weissella Cibaria Bbk-1 Bound with Acarbose, PDB code: 7dch was solved by K.Krusong, K.Wangpaiboon, S.Kim, T.Mori, T.Hakoshima, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	27.76 / 1.69
Space group	P 41 2 2
Cell size a, b, c (Å), α, β, γ (°)	116.992, 116.992, 107.167, 90, 90, 90
R / Rfree (%)	17.7 / 20.3

The binding sites of Calcium atom in the Alpha-Glucosidase From Weissella Cibaria Bbk-1 Bound with Acarbose (pdb code 7dch). 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 Alpha-Glucosidase From Weissella Cibaria Bbk-1 Bound with Acarbose, PDB code: 7dch:

Calcium binding site 1 out of 1 in the Alpha-Glucosidase From Weissella Cibaria Bbk-1 Bound with Acarbose


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Alpha-Glucosidase From Weissella Cibaria Bbk-1 Bound with Acarbose within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca604 b:20.5 occ:1.00 OD1 A:ASN160 2.3 22.3 1.0 OD1 A:ASP161 2.3 24.6 1.0 OD2 A:ASP183 2.3 21.4 1.0 OD1 A:ASN155 2.4 21.1 1.0 O A:GLY181 2.4 19.0 1.0 O A:ASP157 2.4 22.6 1.0 O A:HOH813 2.4 22.2 1.0 CG A:ASN155 3.3 20.4 1.0 CG A:ASP183 3.4 18.5 1.0 CG A:ASN160 3.4 15.9 1.0 C A:ASP157 3.5 25.3 1.0 C A:GLY181 3.5 22.3 1.0 CG A:ASP161 3.6 23.0 1.0 ND2 A:ASN155 3.8 24.2 1.0 CB A:ASP183 3.9 21.2 1.0 CA A:GLY181 3.9 19.6 1.0 ND2 A:ASN160 4.0 18.7 1.0 N A:ASP157 4.2 22.5 1.0 N A:ASP161 4.2 23.6 1.0 CA A:ASP157 4.3 19.9 1.0 OD2 A:ASP161 4.3 21.5 1.0 CA A:ASP161 4.3 22.7 1.0 N A:VAL158 4.3 23.3 1.0 O A:HIS227 4.4 22.8 1.0 CB A:ASN155 4.4 18.7 1.0 CA A:VAL158 4.4 23.5 1.0 C A:ASN160 4.4 22.5 1.0 OD1 A:ASP183 4.4 22.0 1.0 CA A:ASN155 4.6 19.9 1.0 CB A:ASP161 4.6 22.7 1.0 O A:GLY182 4.6 19.4 1.0 CB A:ASP157 4.6 20.5 1.0 C A:GLY182 4.6 22.5 1.0 N A:GLY182 4.7 19.2 1.0 CB A:ASN160 4.7 25.3 1.0 N A:ASN160 4.7 25.1 1.0 C A:VAL158 4.7 20.8 1.0 O A:ASN160 4.8 22.6 1.0 CA A:ASN160 4.8 22.6 1.0 N A:GLY156 4.9 20.2 1.0 N A:ASP183 4.9 20.4 1.0 O A:HOH842 4.9 24.4 1.0 O A:VAL158 5.0 24.5 1.0 C A:ASN155 5.0 22.3 1.0 CA A:GLY182 5.0 16.3 1.0

K.Wangpaiboon, P.Laohawutthichai, S.Kim, T.Mori, P.Nakapong, R.Pichayangkura, P.Pongsawasdi, T.Hakoshima, K.Krusong. A GH13 Alpha-Glucosidase From Weissella Cibaria Uncommonly Acts on Short-Chain Maltooligosaccharides Acta Crystallogr.,Sect.D V. 77 1064 2021.
ISSN: ESSN 1399-0047
DOI: 10.1107/S205979832100677X