Calcium in PDB 6m77: GH31 Alpha-N-Acetylgalactosaminidase From Enterococcus Faecalis in Complex with N-Acetylgalactosamine

The structure of GH31 Alpha-N-Acetylgalactosaminidase From Enterococcus Faecalis in Complex with N-Acetylgalactosamine, PDB code: 6m77 was solved by T.Miyazaki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.09 / 1.90
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	82.596, 83.233, 147.787, 90.00, 90.00, 90.00
R / Rfree (%)	21.7 / 26.1

The binding sites of Calcium atom in the GH31 Alpha-N-Acetylgalactosaminidase From Enterococcus Faecalis in Complex with N-Acetylgalactosamine (pdb code 6m77). 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 GH31 Alpha-N-Acetylgalactosaminidase From Enterococcus Faecalis in Complex with N-Acetylgalactosamine, PDB code: 6m77:

Calcium binding site 1 out of 1 in the GH31 Alpha-N-Acetylgalactosaminidase From Enterococcus Faecalis in Complex with N-Acetylgalactosamine


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of GH31 Alpha-N-Acetylgalactosaminidase From Enterococcus Faecalis in Complex with N-Acetylgalactosamine within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1007 b:36.1 occ:1.00 O A:HOH1344 2.2 17.4 1.0 OE2 A:GLU350 2.4 27.6 1.0 OE2 A:GLU336 2.4 18.6 1.0 OE1 A:GLU350 2.4 22.9 1.0 O A:ALA309 2.4 18.1 1.0 O A:HOH1260 2.5 27.0 1.0 CD A:GLU350 2.7 25.8 1.0 OD2 A:ASP313 3.2 34.2 1.0 C A:ALA309 3.5 19.2 1.0 CD A:GLU336 3.6 21.6 1.0 CB A:ASP313 3.9 23.5 1.0 CG A:ASP313 4.0 22.8 1.0 O A:HOH1317 4.2 20.1 1.0 CG A:GLU350 4.2 23.3 1.0 OE1 A:GLU336 4.2 22.4 1.0 N A:TYR310 4.4 18.9 1.0 OD1 A:ASN308 4.4 17.7 1.0 O A:HOH1275 4.4 21.3 1.0 CA A:TYR310 4.5 18.1 1.0 CA A:ALA309 4.5 18.0 1.0 CB A:ALA309 4.6 18.6 1.0 N A:ASP313 4.6 20.8 1.0 CG A:GLU336 4.6 26.0 1.0 O A:HOH1178 4.7 23.4 1.0 N A:ALA309 4.7 17.8 1.0 CG A:ASN308 4.8 18.5 1.0 ND2 A:ASN308 4.8 19.5 1.0 CD1 A:TYR310 4.9 17.2 1.0 CA A:ASP313 4.9 20.9 1.0 NH2 A:ARG312 4.9 28.4 1.0 NE1 A:TRP315 4.9 26.2 1.0

T.Miyazaki, E.Y.Park. Crystal Structure of the Enterococcus Faecalis Alpha-N-Acetylgalactosaminidase, A Member of the Glycoside Hydrolase Family 31. Febs Lett. 2020.
ISSN: ISSN 0014-5793
PubMed: 32367553
DOI: 10.1002/1873-3468.13804