Calcium in PDB 3ga5: X-Ray Structure of Glucose/Galactose Receptor From Salmonella Typhimurium in Complex with (2R)-Glyceryl-Beta- D-Galactopyranoside

The structure of X-Ray Structure of Glucose/Galactose Receptor From Salmonella Typhimurium in Complex with (2R)-Glyceryl-Beta- D-Galactopyranoside, PDB code: 3ga5 was solved by S.Sooriyaarachchi, W.Ubhayasekera, S.L.Mowbray, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.74 / 1.87
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	36.458, 109.275, 150.703, 90.00, 90.00, 90.00
R / Rfree (%)	17 / 22.2

The structure of X-Ray Structure of Glucose/Galactose Receptor From Salmonella Typhimurium in Complex with (2R)-Glyceryl-Beta- D-Galactopyranoside also contains other interesting chemical elements:

Sodium

(Na)

2 atoms

The binding sites of Calcium atom in the X-Ray Structure of Glucose/Galactose Receptor From Salmonella Typhimurium in Complex with (2R)-Glyceryl-Beta- D-Galactopyranoside (pdb code 3ga5). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the X-Ray Structure of Glucose/Galactose Receptor From Salmonella Typhimurium in Complex with (2R)-Glyceryl-Beta- D-Galactopyranoside, PDB code: 3ga5:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the X-Ray Structure of Glucose/Galactose Receptor From Salmonella Typhimurium in Complex with (2R)-Glyceryl-Beta- D-Galactopyranoside


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of X-Ray Structure of Glucose/Galactose Receptor From Salmonella Typhimurium in Complex with (2R)-Glyceryl-Beta- D-Galactopyranoside within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca500 b:10.7 occ:1.00 OD1 A:ASP134 2.3 12.0 1.0 O A:LYS140 2.3 11.5 1.0 OD1 A:ASN136 2.4 13.4 1.0 OD1 A:ASP138 2.4 15.2 1.0 OE1 A:GLN142 2.4 11.2 1.0 OE2 A:GLU205 2.4 10.2 1.0 OE1 A:GLU205 2.6 8.7 1.0 CD A:GLU205 2.9 9.7 1.0 CG A:ASP138 3.4 15.8 1.0 C A:LYS140 3.5 12.1 1.0 CG A:ASN136 3.5 16.7 1.0 CG A:ASP134 3.5 13.2 1.0 CD A:GLN142 3.6 10.6 1.0 OD2 A:ASP138 3.9 14.6 1.0 N A:LYS140 4.0 13.8 1.0 ND2 A:ASN136 4.1 15.8 1.0 N A:ASP138 4.2 16.7 1.0 NE2 A:GLN142 4.2 10.8 1.0 CA A:LYS140 4.2 13.1 1.0 N A:GLN142 4.2 8.6 1.0 OD2 A:ASP134 4.3 13.3 1.0 CH2 A:TRP127 4.4 14.3 1.0 CG A:GLU205 4.4 8.9 1.0 N A:ASN136 4.4 16.3 1.0 O A:HOH383 4.4 11.5 1.0 CA A:ASP134 4.4 13.4 1.0 N A:ILE141 4.5 11.0 1.0 CB A:ASP138 4.5 15.6 1.0 C A:ASP134 4.6 14.0 1.0 CB A:ASP134 4.6 13.5 1.0 CA A:ILE141 4.6 9.8 1.0 CB A:LYS140 4.6 13.7 1.0 N A:LYS137 4.6 17.5 1.0 N A:GLY139 4.6 15.4 1.0 N A:LEU135 4.6 14.3 1.0 CB A:ASN136 4.7 16.4 1.0 CA A:ASP138 4.7 16.0 1.0 CG A:GLN142 4.8 8.9 1.0 C A:ILE141 4.8 9.0 1.0 CA A:ASN136 4.8 16.9 1.0 C A:ASN136 4.8 17.3 1.0 CB A:GLN142 4.9 8.1 1.0 CZ2 A:TRP127 4.9 14.6 1.0 C A:ASP138 4.9 15.6 1.0

Calcium binding site 2 out of 2 in the X-Ray Structure of Glucose/Galactose Receptor From Salmonella Typhimurium in Complex with (2R)-Glyceryl-Beta- D-Galactopyranoside


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of X-Ray Structure of Glucose/Galactose Receptor From Salmonella Typhimurium in Complex with (2R)-Glyceryl-Beta- D-Galactopyranoside within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca501 b:12.5 occ:1.00 OD1 B:ASP134 2.3 12.7 1.0 O B:LYS140 2.3 11.1 1.0 OD1 B:ASN136 2.4 13.9 1.0 OE1 B:GLN142 2.4 9.6 1.0 OD1 B:ASP138 2.4 13.2 1.0 OE2 B:GLU205 2.5 9.4 1.0 OE1 B:GLU205 2.5 7.5 1.0 CD B:GLU205 2.8 8.2 1.0 CG B:ASP138 3.5 13.8 1.0 CG B:ASN136 3.5 13.1 1.0 CG B:ASP134 3.5 11.6 1.0 C B:LYS140 3.5 11.8 1.0 CD B:GLN142 3.6 9.2 1.0 OD2 B:ASP138 3.9 12.6 1.0 ND2 B:ASN136 4.0 12.2 1.0 N B:LYS140 4.0 12.6 1.0 N B:GLN142 4.2 9.8 1.0 OD2 B:ASP134 4.2 12.8 1.0 NE2 B:GLN142 4.2 8.9 1.0 CA B:LYS140 4.3 12.2 1.0 N B:ASP138 4.3 13.9 1.0 CG B:GLU205 4.3 7.2 1.0 CA B:ASP134 4.3 11.2 1.0 N B:ASN136 4.4 12.5 1.0 O B:HOH367 4.4 9.7 1.0 CH2 B:TRP127 4.4 10.6 1.0 CB B:ASP134 4.5 11.5 1.0 N B:ILE141 4.5 10.9 1.0 C B:ASP134 4.5 11.7 1.0 N B:LYS137 4.6 14.3 1.0 CA B:ILE141 4.6 10.6 1.0 N B:LEU135 4.6 11.7 1.0 N B:GLY139 4.7 13.1 1.0 CB B:ASN136 4.7 13.0 1.0 CB B:LYS140 4.7 12.5 1.0 CB B:ASP138 4.7 13.3 1.0 C B:ILE141 4.8 10.2 1.0 CG B:GLN142 4.8 9.1 1.0 CB B:GLN142 4.8 9.0 1.0 CA B:ASN136 4.9 13.3 1.0 CA B:ASP138 4.9 13.6 1.0 C B:ASN136 4.9 13.5 1.0 C B:ASP138 5.0 13.3 1.0

S.Sooriyaarachchi, W.Ubhayasekera, W.Boos, S.L.Mowbray. X-Ray Structure of Glucose/Galactose Receptor From Salmonella Typhimurium in Complex with the Physiological Ligand, (2R)-Glyceryl-Beta-D-Galactopyranoside Febs J. V. 276 2116 2009.
ISSN: ISSN 1742-464X
PubMed: 19292879
DOI: 10.1111/J.1742-4658.2009.06945.X