Calcium in PDB 7vl0: The Complex Structure of Beta-1,2-Glucosyltransferase From Ignavibacterium Album with P-Nitrophenyl-Alpha-D-Glucopyranoside

The structure of The Complex Structure of Beta-1,2-Glucosyltransferase From Ignavibacterium Album with P-Nitrophenyl-Alpha-D-Glucopyranoside, PDB code: 7vl0 was solved by K.Kobayashi, H.Shimizu, N.Tanaka, K.Kuramochi, H.Nakai, M.Nakajima, H.Taguchi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.89 / 1.79
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	163.576, 71.533, 129.872, 90, 105.79, 90
R / Rfree (%)	18 / 21.8

The binding sites of Calcium atom in the The Complex Structure of Beta-1,2-Glucosyltransferase From Ignavibacterium Album with P-Nitrophenyl-Alpha-D-Glucopyranoside (pdb code 7vl0). 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 The Complex Structure of Beta-1,2-Glucosyltransferase From Ignavibacterium Album with P-Nitrophenyl-Alpha-D-Glucopyranoside, PDB code: 7vl0:

Calcium binding site 1 out of 1 in the The Complex Structure of Beta-1,2-Glucosyltransferase From Ignavibacterium Album with P-Nitrophenyl-Alpha-D-Glucopyranoside


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Complex Structure of Beta-1,2-Glucosyltransferase From Ignavibacterium Album with P-Nitrophenyl-Alpha-D-Glucopyranoside within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca801 b:18.7 occ:1.00 O B:GLY565 2.3 16.9 1.0 O B:HOH1150 2.4 15.0 1.0 OE1 B:GLU567 2.5 16.6 1.0 O B:HOH1074 2.5 22.1 1.0 OE2 B:GLU567 2.5 18.4 1.0 O B:HOH1223 2.6 20.6 1.0 CD B:GLU567 2.8 16.9 1.0 C B:GLY565 3.3 17.7 1.0 CA B:GLY565 4.0 17.7 1.0 NZ B:LYS616 4.1 22.3 1.0 O B:HOH910 4.3 19.3 1.0 CG B:GLU567 4.4 17.7 1.0 N B:ILE566 4.4 16.7 1.0 O B:HOH960 4.5 22.0 1.0 ND2 B:ASN599 4.6 34.0 1.0 O B:THR598 4.6 17.6 1.0 OD1 B:ASN596 4.6 18.4 1.0 CA B:ILE566 4.8 15.5 1.0 O B:HOH943 4.8 20.4 1.0 N B:GLU567 4.8 15.7 1.0 C B:ILE566 4.9 16.1 1.0 CB B:THR598 4.9 18.1 1.0

K.Kobayashi, H.Shimizu, N.Tanaka, K.Kuramochi, H.Nakai, M.Nakajima, H.Taguchi. Characterization and Structural Analyses of A Novel Glycosyltransferase Acting on the Beta-1,2-Glucosidic Linkages. J.Biol.Chem. V. 298 01606 2022.
ISSN: ESSN 1083-351X
PubMed: 35065074
DOI: 10.1016/J.JBC.2022.101606