Magnesium in PDB 6kd2: Room Temperature Structure of Glucose Isomerase Delivered in Gelatin By Serial Millisecond Crystallography

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

The structure of Room Temperature Structure of Glucose Isomerase Delivered in Gelatin By Serial Millisecond Crystallography, PDB code: 6kd2 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)	72.00 / 1.70
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	94.520, 100.170, 103.570, 90.00, 90.00, 90.00
R / Rfree (%)	19.3 / 22.4

The binding sites of Magnesium atom in the Room Temperature Structure of Glucose Isomerase Delivered in Gelatin By Serial Millisecond Crystallography (pdb code 6kd2). 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 Gelatin By Serial Millisecond Crystallography, PDB code: 6kd2:
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 Gelatin 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 Gelatin By Serial Millisecond Crystallography within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:16.7 occ:1.00 OE1 A:GLU217 2.0 26.8 1.0 OD2 A:ASP255 2.2 31.6 1.0 O A:HOH535 2.2 32.5 1.0 OD1 A:ASP255 2.3 30.0 1.0 OD1 A:ASP257 2.3 32.0 1.0 NE2 A:HIS220 2.6 27.2 1.0 CG A:ASP255 2.6 32.6 1.0 CD A:GLU217 3.1 21.2 1.0 HD2 A:HIS220 3.1 28.6 1.0 CD2 A:HIS220 3.2 23.8 1.0 CG A:ASP257 3.2 30.0 1.0 OD2 A:ASP257 3.3 31.9 1.0 HD21 A:ASN247 3.4 30.0 1.0 OE2 A:GLU217 3.5 27.3 1.0 O A:HOH656 3.7 35.9 1.0 CE1 A:HIS220 3.7 22.7 1.0 HE1 A:HIS220 4.0 27.3 1.0 HD22 A:ASN247 4.0 30.0 1.0 ND2 A:ASN247 4.0 25.0 1.0 HE3 A:LYS183 4.1 29.9 1.0 O A:HOH562 4.1 25.6 1.0 CB A:ASP255 4.1 19.7 1.0 HZ2 A:LYS183 4.2 37.8 1.0 CG A:HIS220 4.4 19.3 1.0 HG2 A:GLU217 4.4 23.6 1.0 CG A:GLU217 4.4 19.6 1.0 HB3 A:ASP255 4.5 23.6 1.0 HB2 A:ASP255 4.5 23.6 1.0 HZ1 A:LYS183 4.6 37.8 1.0 ND1 A:HIS220 4.6 23.1 1.0 H A:ASP257 4.6 27.7 1.0 CB A:ASP257 4.6 23.4 1.0 HA A:ASP257 4.7 28.6 1.0 NZ A:LYS183 4.7 31.5 1.0 O A:HOH574 4.8 34.0 1.0 CE A:LYS183 4.8 24.9 1.0 OD2 A:ASP287 4.9 31.9 1.0 HA A:ASP255 5.0 20.7 1.0 HD2 A:LYS183 5.0 29.6 1.0 HA3 A:GLY219 5.0 27.4 1.0 HG3 A:GLU217 5.0 23.6 1.0

Magnesium binding site 2 out of 2 in the Room Temperature Structure of Glucose Isomerase Delivered in Gelatin 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 Gelatin By Serial Millisecond Crystallography within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:23.1 occ:1.00 OE2 A:GLU181 2.2 44.8 1.0 OD2 A:ASP287 2.2 31.9 1.0 OE2 A:GLU217 2.3 27.3 1.0 OD2 A:ASP245 2.3 29.2 1.0 O A:HOH574 2.6 34.0 1.0 CD A:GLU181 2.9 32.8 1.0 O A:HOH510 3.0 42.8 1.0 OE1 A:GLU181 3.1 32.9 1.0 CG A:ASP287 3.3 30.8 1.0 CG A:ASP245 3.5 24.8 1.0 CD A:GLU217 3.5 21.2 1.0 HE1 A:HIS220 3.6 27.3 1.0 HB3 A:ASP287 3.6 28.6 1.0 HB2 A:GLU217 3.6 23.7 1.0 HB2 A:ASP287 3.7 28.6 1.0 CB A:ASP287 3.8 23.8 1.0 HB3 A:ASP245 4.0 26.9 1.0 HB2 A:ASP245 4.1 26.9 1.0 O A:HOH618 4.1 51.8 1.0 CB A:ASP245 4.1 22.4 1.0 CE1 A:HIS220 4.2 22.7 1.0 O A:HOH535 4.2 32.5 1.0 CG A:GLU217 4.3 19.6 1.0 CG A:GLU181 4.3 28.5 1.0 HD21 A:ASN215 4.3 30.8 1.0 OE1 A:GLU217 4.4 26.8 1.0 HG3 A:GLU217 4.4 23.6 1.0 CB A:GLU217 4.4 19.8 1.0 OD1 A:ASP287 4.4 30.4 1.0 OD1 A:ASP245 4.4 25.2 1.0 HG3 A:GLU181 4.5 34.2 1.0 HG2 A:GLU181 4.7 34.2 1.0 HZ2 A:TRP16 4.7 32.5 1.0 HD22 A:ASN215 4.7 30.8 1.0 HB3 A:GLU217 4.7 23.7 1.0 NE2 A:HIS220 4.7 27.2 1.0 ND2 A:ASN215 4.8 25.7 1.0 ND1 A:HIS220 4.9 23.1 1.0

K.H.Nam, K.H.Nam. N/A N/A.