Sodium in PDB 8hw3: Limosilactobacillus Reuteri N1 Gtfb-Acarbose

All present enzymatic activity of Limosilactobacillus Reuteri N1 Gtfb-Acarbose:
2.4.1.5;

The structure of Limosilactobacillus Reuteri N1 Gtfb-Acarbose, PDB code: 8hw3 was solved by J.J.Dong, Y.X.Bai, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.11 / 2.66
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	204.77, 100.62, 106.67, 90, 108.17, 90
R / Rfree (%)	21.2 / 26.2

The binding sites of Sodium atom in the Limosilactobacillus Reuteri N1 Gtfb-Acarbose (pdb code 8hw3). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Limosilactobacillus Reuteri N1 Gtfb-Acarbose, PDB code: 8hw3:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Limosilactobacillus Reuteri N1 Gtfb-Acarbose


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Limosilactobacillus Reuteri N1 Gtfb-Acarbose within 5.0Å range: probe atom residue distance (Å) B Occ A:Na901 b:19.9 occ:1.00 OD1 A:ASN721 2.2 20.1 1.0 O A:HIS265 2.2 18.5 1.0 O A:GLU215 2.2 22.4 1.0 O A:HOH1020 2.2 18.1 1.0 OE2 A:GLU215 2.2 21.2 1.0 OD1 A:ASP221 2.3 22.0 1.0 CG A:ASP221 3.1 22.6 1.0 OD2 A:ASP221 3.3 22.6 1.0 CD A:GLU215 3.3 20.8 1.0 C A:GLU215 3.4 22.7 1.0 CG A:ASN721 3.4 21.1 1.0 C A:HIS265 3.5 19.0 1.0 CG A:GLU215 3.8 21.2 1.0 CA A:GLU215 4.0 22.4 1.0 ND2 A:ASN721 4.0 21.9 1.0 CB A:HIS265 4.1 20.3 1.0 OE1 A:GLU215 4.3 19.1 1.0 O A:ASN721 4.3 21.3 1.0 CG2 A:ILE266 4.3 17.6 1.0 CA A:HIS265 4.3 20.1 1.0 N A:ILE266 4.4 18.2 1.0 N A:PHE216 4.4 23.3 1.0 CB A:GLU215 4.5 21.9 1.0 CB A:ASN721 4.5 21.1 1.0 O A:HOH1034 4.5 10.2 1.0 CA A:ILE266 4.5 18.2 1.0 O A:HOH1039 4.5 17.1 1.0 CB A:ASP221 4.6 23.0 1.0 CA A:PHE216 4.7 24.4 1.0 CA A:ASN721 4.7 21.6 1.0 O A:ILE222 4.9 21.0 1.0 C A:ASN721 4.9 21.4 1.0

Sodium binding site 2 out of 2 in the Limosilactobacillus Reuteri N1 Gtfb-Acarbose


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Limosilactobacillus Reuteri N1 Gtfb-Acarbose within 5.0Å range: probe atom residue distance (Å) B Occ B:Na902 b:20.5 occ:1.00 O B:HIS265 2.2 18.6 1.0 O B:GLU215 2.2 21.8 1.0 OD1 B:ASN721 2.2 20.5 1.0 OE2 B:GLU215 2.3 21.3 1.0 OD2 B:ASP221 2.3 23.7 1.0 O B:HOH1014 2.3 20.1 1.0 CG B:ASP221 3.2 23.0 1.0 CD B:GLU215 3.3 21.1 1.0 C B:GLU215 3.3 21.5 1.0 OD1 B:ASP221 3.4 22.1 1.0 CG B:ASN721 3.4 20.6 1.0 C B:HIS265 3.4 20.6 1.0 CG B:GLU215 3.8 21.2 1.0 CA B:GLU215 4.0 21.6 1.0 ND2 B:ASN721 4.0 22.3 1.0 CB B:HIS265 4.1 23.9 1.0 OE1 B:GLU215 4.3 21.1 1.0 O B:ASN721 4.3 20.4 1.0 O B:HOH1001 4.3 99.7 1.0 CA B:HIS265 4.3 22.9 1.0 CG2 B:ILE266 4.3 19.6 1.0 N B:ILE266 4.4 19.5 1.0 N B:PHE216 4.4 21.3 1.0 CB B:GLU215 4.5 21.2 1.0 CA B:ILE266 4.5 18.8 1.0 O B:HOH1044 4.5 9.7 1.0 CB B:ASN721 4.5 19.9 1.0 O B:HOH1037 4.6 18.4 1.0 CB B:ASP221 4.6 22.9 1.0 CA B:PHE216 4.8 21.3 1.0 CA B:ASN721 4.8 20.6 1.0 O B:ILE222 4.8 22.7 1.0 C B:ASN721 5.0 20.9 1.0

J.J.Dong, Y.X.Bai. The Evolutionary Advantage of A Tunnel Structure at Donor Subsites on the Processive Mechanism To Be Published.