Calcium in PDB 8va4: Crystal Structure of CAPGH16_3 Enzyme Retrieved From Capybara Gut Metagenome

The structure of Crystal Structure of CAPGH16_3 Enzyme Retrieved From Capybara Gut Metagenome, PDB code: 8va4 was solved by P.S.Vieira, M.P.Martins, M.A.B.Morais, F.Mandelli, M.Chinaglia, E.A.Lima, M.T.Murakami, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.79 / 1.96
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	76.701, 76.701, 131.121, 90, 90, 90
R / Rfree (%)	22.2 / 27.1

The binding sites of Calcium atom in the Crystal Structure of CAPGH16_3 Enzyme Retrieved From Capybara Gut Metagenome (pdb code 8va4). 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 Crystal Structure of CAPGH16_3 Enzyme Retrieved From Capybara Gut Metagenome, PDB code: 8va4:

Calcium binding site 1 out of 1 in the Crystal Structure of CAPGH16_3 Enzyme Retrieved From Capybara Gut Metagenome


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 CAPGH16_3 Enzyme Retrieved From Capybara Gut Metagenome within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca402 b:37.3 occ:1.00 O A:GLY197 2.2 41.6 1.0 O A:HOH596 2.4 41.1 1.0 O A:HOH529 2.4 36.7 1.0 O A:GLU144 2.4 36.6 1.0 O A:ASP373 2.5 34.6 1.0 OD1 A:ASP373 2.5 40.7 1.0 O A:HOH622 2.7 36.6 1.0 C A:GLY197 3.4 40.0 1.0 C A:GLU144 3.6 34.6 1.0 C A:ASP373 3.6 32.9 1.0 CG A:ASP373 3.6 32.6 1.0 CA A:GLY197 4.0 40.1 1.0 CA A:ASP373 4.1 33.8 1.0 O A:HOH520 4.3 32.0 1.0 CA A:GLU144 4.3 31.8 1.0 OD2 A:ASP373 4.4 36.4 1.0 O A:PHE145 4.4 36.8 1.0 N A:ALA198 4.4 40.5 1.0 CB A:ASP373 4.5 34.3 1.0 CB A:GLU144 4.6 32.6 1.0 N A:PHE145 4.6 33.5 1.0 C A:PHE145 4.6 35.1 1.0 CB A:PHE145 4.6 38.8 1.0 N A:TYR374 4.7 33.9 1.0 CA A:ALA198 4.7 35.8 1.0 OE1 A:GLU144 4.7 41.3 1.0 CB A:TYR374 4.7 37.2 1.0 CA A:PHE145 4.8 34.7 1.0 O A:HOH643 4.9 53.7 1.0 CA A:TYR374 5.0 31.7 1.0

F.Mandelli, M.P.Martins, M.Chinaglia, E.A.Lima, M.A.B.Morais, T.B.Lima, L.Cabral, R.A.S.Pirolla, F.J.Fuzita, D.A.A.Paixao, M.O.Andrade, L.D.Wolf, P.S.Vieira, G.F.Persinoti, M.T.Murakami. A Functionally Augmented Carbohydrate Utilization Locus From Herbivore Gut Microbiota Fueled By Dietary Beta-Glucans. Npj Biofilms Microbiomes V. 10 105 2024.
ISSN: ISSN 2055-5008
PubMed: 39397008
DOI: 10.1038/S41522-024-00578-6