Manganese in PDB 5zye: Crystal Structure of Glucose Isomerase Soaked with MN2+ and Glucose

All present enzymatic activity of Crystal Structure of Glucose Isomerase Soaked with MN2+ and Glucose:
5.3.1.5;

The structure of Crystal Structure of Glucose Isomerase Soaked with MN2+ and Glucose, PDB code: 5zye was solved by K.H.Nam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	71.19 / 1.40
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	92.749, 98.961, 102.481, 90.00, 90.00, 90.00
R / Rfree (%)	16.7 / 18.6

The binding sites of Manganese atom in the Crystal Structure of Glucose Isomerase Soaked with MN2+ and Glucose (pdb code 5zye). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Crystal Structure of Glucose Isomerase Soaked with MN2+ and Glucose, PDB code: 5zye:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Crystal Structure of Glucose Isomerase Soaked with MN2+ and Glucose


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Glucose Isomerase Soaked with MN2+ and Glucose within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn401 b:10.7 occ:1.00 OE1 A:GLU217 2.1 10.8 1.0 OD2 A:ASP255 2.2 12.7 1.0 OD1 A:ASP257 2.2 11.6 1.0 O A:HOH619 2.2 11.4 1.0 OD1 A:ASP255 2.3 11.4 1.0 NE2 A:HIS220 2.4 11.0 1.0 CG A:ASP255 2.6 12.6 1.0 CD A:GLU217 2.9 11.2 1.0 CD2 A:HIS220 3.1 8.8 1.0 OE2 A:GLU217 3.1 11.4 1.0 CG A:ASP257 3.2 11.4 1.0 CE1 A:HIS220 3.4 9.5 1.0 OD2 A:ASP257 3.4 14.0 1.0 O A:HOH640 3.7 13.6 1.0 ND2 A:ASN247 4.0 9.1 1.0 O A:HOH635 4.0 10.4 1.0 O3 A:GLC403 4.1 11.3 1.0 CB A:ASP255 4.1 11.4 1.0 CG A:HIS220 4.2 7.9 1.0 CG A:GLU217 4.3 9.4 1.0 OD2 A:ASP287 4.4 13.2 1.0 ND1 A:HIS220 4.4 9.0 1.0 O A:HOH565 4.4 28.5 1.0 CB A:ASP257 4.6 10.5 1.0 MN A:MN402 4.6 11.8 1.0 CE A:LYS183 4.8 10.3 1.0 CA A:ASP257 5.0 9.4 1.0

Manganese binding site 2 out of 2 in the Crystal Structure of Glucose Isomerase Soaked with MN2+ and Glucose


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of Glucose Isomerase Soaked with MN2+ and Glucose within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn402 b:11.8 occ:1.00 OE2 A:GLU181 2.1 11.2 1.0 OD2 A:ASP287 2.1 13.2 1.0 OD2 A:ASP245 2.1 12.5 1.0 OE2 A:GLU217 2.1 11.4 1.0 O4 A:GLC403 2.2 13.3 1.0 O3 A:GLC403 2.3 11.3 1.0 CD A:GLU181 3.0 11.6 1.0 C3 A:GLC403 3.1 12.6 1.0 C4 A:GLC403 3.1 13.6 1.0 CG A:ASP287 3.2 11.3 1.0 CG A:ASP245 3.3 11.5 1.0 CD A:GLU217 3.3 11.2 1.0 OE1 A:GLU181 3.3 12.4 1.0 CB A:ASP287 3.7 10.1 1.0 O A:HOH619 3.7 11.4 1.0 CB A:ASP245 3.9 9.0 1.0 CE1 A:HIS220 4.0 9.5 1.0 CG A:GLU217 4.0 9.4 1.0 CB A:GLU217 4.1 8.1 1.0 O A:HOH763 4.1 15.0 1.0 OE1 A:GLU217 4.3 10.8 1.0 OD1 A:ASP287 4.3 11.6 1.0 OD1 A:ASP245 4.3 11.8 1.0 CG A:GLU181 4.4 9.8 1.0 C5 A:GLC403 4.5 15.3 1.0 C2 A:GLC403 4.5 12.9 1.0 NE2 A:HIS220 4.6 11.0 1.0 MN A:MN401 4.6 10.7 1.0 ND1 A:HIS220 4.6 9.0 1.0 ND2 A:ASN215 5.0 12.3 1.0

J.E.Bae, K.Y.Hwang, K.H.Nam. Structural Analysis of Substrate Recognition By Glucose Isomerase in MN2+Binding Mode at M2 Site in S. Rubiginosus Biochem. Biophys. Res. V. 503 770 2018COMMUN..
ISSN: ESSN 1090-2104
PubMed: 29909012
DOI: 10.1016/J.BBRC.2018.06.074