Calcium in PDB 2vng: Family 51 Carbohydrate Binding Module From A Family 98 Glycoside Hydrolase Produced By Clostridium Perfringens in Complex with Blood Group A-Trisaccharide Ligand.

The structure of Family 51 Carbohydrate Binding Module From A Family 98 Glycoside Hydrolase Produced By Clostridium Perfringens in Complex with Blood Group A-Trisaccharide Ligand., PDB code: 2vng was solved by K.J.Gregg, R.Finn, D.W.Abbott, A.B.Boraston, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	56.80 / 1.40
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	69.683, 98.754, 49.241, 90.00, 90.00, 90.00
R / Rfree (%)	18.4 / 23.5

The binding sites of Calcium atom in the Family 51 Carbohydrate Binding Module From A Family 98 Glycoside Hydrolase Produced By Clostridium Perfringens in Complex with Blood Group A-Trisaccharide Ligand. (pdb code 2vng). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Family 51 Carbohydrate Binding Module From A Family 98 Glycoside Hydrolase Produced By Clostridium Perfringens in Complex with Blood Group A-Trisaccharide Ligand., PDB code: 2vng:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Family 51 Carbohydrate Binding Module From A Family 98 Glycoside Hydrolase Produced By Clostridium Perfringens in Complex with Blood Group A-Trisaccharide Ligand.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Family 51 Carbohydrate Binding Module From A Family 98 Glycoside Hydrolase Produced By Clostridium Perfringens in Complex with Blood Group A-Trisaccharide Ligand. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1213 b:15.9 occ:1.00 O A:LYS190 2.3 16.6 1.0 O A:LYS137 2.3 15.7 1.0 O A:ALA187 2.3 16.3 1.0 OD2 A:ASP194 2.3 16.0 1.0 O A:HOH2276 2.4 17.8 1.0 O A:HOH2196 2.4 17.4 1.0 OD1 A:ASP194 2.8 15.4 1.0 CG A:ASP194 2.9 13.5 1.0 C A:ALA187 3.4 16.3 1.0 C A:LYS137 3.4 14.3 1.0 C A:LYS190 3.5 17.1 1.0 CA A:ALA187 3.9 14.4 1.0 CB A:LYS137 4.0 14.9 0.5 N A:LYS137 4.1 14.1 1.0 CA A:LYS137 4.1 14.7 0.5 CB A:ALA187 4.1 14.7 1.0 CB A:LYS137 4.1 15.0 0.5 CA A:LYS137 4.1 14.4 0.5 N A:LYS190 4.2 18.3 1.0 CA A:THR191 4.3 16.2 1.0 N A:THR191 4.3 16.4 1.0 CB A:ASP194 4.4 14.2 1.0 CA A:LYS190 4.4 18.2 1.0 N A:VAL138 4.5 13.1 1.0 O A:HOH2202 4.5 23.7 1.0 N A:GLY188 4.5 17.6 1.0 O A:HOH2197 4.6 23.0 1.0 C A:THR191 4.6 16.4 1.0 O A:TRP192 4.7 17.2 1.0 CA A:VAL138 4.7 14.5 1.0 N A:TRP192 4.8 17.4 1.0 O A:GLN134 4.8 21.8 1.0 CB A:LYS190 4.8 20.2 1.0 CG A:LYS137 4.8 18.1 0.5 N A:GLU189 4.9 20.1 1.0 C A:GLY188 4.9 19.2 1.0 CA A:GLY188 4.9 18.6 1.0

Calcium binding site 2 out of 2 in the Family 51 Carbohydrate Binding Module From A Family 98 Glycoside Hydrolase Produced By Clostridium Perfringens in Complex with Blood Group A-Trisaccharide Ligand.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Family 51 Carbohydrate Binding Module From A Family 98 Glycoside Hydrolase Produced By Clostridium Perfringens in Complex with Blood Group A-Trisaccharide Ligand. within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1214 b:16.3 occ:1.00 O B:LYS190 2.2 16.4 1.0 O B:ALA187 2.3 17.0 1.0 O B:LYS137 2.3 17.4 1.0 OD2 B:ASP194 2.3 16.1 1.0 O B:HOH2257 2.4 16.9 1.0 O B:HOH2179 2.5 17.2 1.0 OD1 B:ASP194 2.8 15.5 1.0 CG B:ASP194 2.9 15.1 1.0 C B:ALA187 3.4 16.0 1.0 C B:LYS190 3.5 16.3 1.0 C B:LYS137 3.5 15.0 1.0 CA B:ALA187 3.9 14.7 1.0 CB B:ALA187 4.0 14.1 1.0 N B:LYS137 4.1 16.7 1.0 CB B:LYS137 4.2 16.3 1.0 CA B:LYS137 4.2 16.0 1.0 N B:LYS190 4.2 19.7 1.0 CA B:THR191 4.3 16.3 1.0 N B:THR191 4.3 16.1 1.0 CA B:LYS190 4.4 18.8 1.0 CB B:ASP194 4.4 13.7 1.0 O B:HOH2183 4.4 26.0 1.0 N B:VAL138 4.5 13.7 1.0 O B:HOH2178 4.5 24.3 1.0 C B:THR191 4.5 16.1 1.0 N B:GLY188 4.5 15.8 1.0 O B:TRP192 4.7 18.3 1.0 CA B:VAL138 4.7 14.6 1.0 N B:TRP192 4.8 17.3 1.0 CA B:GLY188 4.9 17.2 1.0 O B:GLN134 4.9 21.4 1.0 C B:GLY188 4.9 18.8 1.0 N B:GLU189 4.9 19.3 1.0 O B:THR191 5.0 16.6 1.0

K.J.Gregg, R.Finn, D.W.Abbott, A.B.Boraston. Divergent Modes of Glycan Recognition By A New Family of Carbohydrate-Binding Modules J.Biol.Chem. V. 283 12604 2008.
ISSN: ISSN 0021-9258
PubMed: 18292090
DOI: 10.1074/JBC.M709865200