Magnesium in PDB 6kcc: Room Temperature Structure of Glucose Isomerase Delivered in Shortening B By Serial Millisecond Crystallography

All present enzymatic activity of Room Temperature Structure of Glucose Isomerase Delivered in Shortening B By Serial Millisecond Crystallography:
5.3.1.5;

The structure of Room Temperature Structure of Glucose Isomerase Delivered in Shortening B By Serial Millisecond Crystallography, PDB code: 6kcc 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)	71.80 / 2.00
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	94.190, 99.920, 103.250, 90.00, 90.00, 90.00
R / Rfree (%)	17.6 / 20.1

The binding sites of Magnesium atom in the Room Temperature Structure of Glucose Isomerase Delivered in Shortening B By Serial Millisecond Crystallography (pdb code 6kcc). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Room Temperature Structure of Glucose Isomerase Delivered in Shortening B By Serial Millisecond Crystallography, PDB code: 6kcc:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Room Temperature Structure of Glucose Isomerase Delivered in Shortening B By Serial Millisecond Crystallography


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Room Temperature Structure of Glucose Isomerase Delivered in Shortening B By Serial Millisecond Crystallography within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:18.9 occ:1.00 O A:HOH669 1.9 30.8 1.0 OE1 A:GLU217 2.0 27.2 1.0 OD2 A:ASP255 2.2 36.1 1.0 OD1 A:ASP257 2.3 30.6 1.0 OD1 A:ASP255 2.4 32.5 1.0 CG A:ASP255 2.6 34.4 1.0 NE2 A:HIS220 2.6 30.0 1.0 CD A:GLU217 3.1 27.6 1.0 CD2 A:HIS220 3.2 21.9 1.0 CG A:ASP257 3.2 32.0 1.0 OD2 A:ASP257 3.5 37.2 1.0 OE2 A:GLU217 3.5 30.3 1.0 O A:HOH697 3.7 36.6 1.0 CE1 A:HIS220 3.7 24.3 1.0 ND2 A:ASN247 3.9 26.8 1.0 CB A:ASP255 4.1 27.7 1.0 O A:HOH531 4.2 33.5 1.0 CG A:HIS220 4.4 25.5 1.0 CG A:GLU217 4.4 21.5 1.0 CB A:ASP257 4.6 27.5 1.0 ND1 A:HIS220 4.6 26.1 1.0 CE A:LYS183 4.8 31.0 1.0 O A:HOH513 4.8 50.5 1.0 NZ A:LYS183 4.9 27.8 1.0 O A:HOH503 4.9 48.8 1.0 OD2 A:ASP287 4.9 35.4 1.0

Magnesium binding site 2 out of 2 in the Room Temperature Structure of Glucose Isomerase Delivered in Shortening B By Serial Millisecond Crystallography


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Room Temperature Structure of Glucose Isomerase Delivered in Shortening B By Serial Millisecond Crystallography within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:26.9 occ:1.00 OD2 A:ASP287 2.1 35.4 1.0 OE2 A:GLU217 2.1 30.3 1.0 OE2 A:GLU181 2.3 43.0 1.0 OD2 A:ASP245 2.5 25.9 1.0 O A:HOH503 2.7 48.8 1.0 CD A:GLU181 3.1 34.0 1.0 CG A:ASP287 3.2 29.5 1.0 OE1 A:GLU181 3.3 32.2 1.0 CD A:GLU217 3.4 27.6 1.0 CG A:ASP245 3.6 32.1 1.0 CB A:ASP287 3.7 25.5 1.0 O A:HOH536 3.7 38.7 1.0 O A:HOH694 3.9 48.0 1.0 CB A:ASP245 4.1 25.3 1.0 O A:HOH669 4.1 30.8 1.0 CE1 A:HIS220 4.2 24.3 1.0 OE1 A:GLU217 4.2 27.2 1.0 CG A:GLU217 4.3 21.5 1.0 CB A:GLU217 4.3 26.1 1.0 OD1 A:ASP287 4.3 27.7 1.0 CG A:GLU181 4.4 29.4 1.0 OD1 A:ASP245 4.6 31.9 1.0 NE2 A:HIS220 4.8 30.0 1.0 ND2 A:ASN215 4.9 27.8 1.0 ND1 A:HIS220 5.0 26.1 1.0

K.H.Nam, K.H.Nam. N/A N/A.
ISSN: ESSN 2045-2322
PubMed: 31919476
DOI: 10.1038/S41598-019-56135-1