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Zinc in PDB 3vgm: Crystal Structure of A Rok Family Glucokinase From Streptomyces Griseus in Complex with Glucose

Enzymatic activity of Crystal Structure of A Rok Family Glucokinase From Streptomyces Griseus in Complex with Glucose

All present enzymatic activity of Crystal Structure of A Rok Family Glucokinase From Streptomyces Griseus in Complex with Glucose:
2.7.1.2;

Protein crystallography data

The structure of Crystal Structure of A Rok Family Glucokinase From Streptomyces Griseus in Complex with Glucose, PDB code: 3vgm was solved by K.Miyazono, N.Tabei, S.Morita, Y.Ohnishi, S.Horinouchi, M.Tanokura, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.84
Space group P 64 2 2
Cell size a, b, c (Å), α, β, γ (°) 108.190, 108.190, 141.180, 90.00, 90.00, 120.00
R / Rfree (%) 16.7 / 18.5

Other elements in 3vgm:

The structure of Crystal Structure of A Rok Family Glucokinase From Streptomyces Griseus in Complex with Glucose also contains other interesting chemical elements:

Potassium (K) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of A Rok Family Glucokinase From Streptomyces Griseus in Complex with Glucose (pdb code 3vgm). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of A Rok Family Glucokinase From Streptomyces Griseus in Complex with Glucose, PDB code: 3vgm:

Zinc binding site 1 out of 1 in 3vgm

Go back to Zinc Binding Sites List in 3vgm
Zinc binding site 1 out of 1 in the Crystal Structure of A Rok Family Glucokinase From Streptomyces Griseus in Complex with Glucose


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of A Rok Family Glucokinase From Streptomyces Griseus in Complex with Glucose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn323

b:22.0
occ:1.00
 ND1 A:HIS157 2.1 14.7 1.0
SG A:CYS174 2.3 16.9 1.0
SG A:CYS167 2.3 18.4 1.0
SG A:CYS169 2.3 18.8 1.0
CE1 A:HIS157 2.9 17.4 1.0
CB A:CYS167 3.1 16.7 1.0
CB A:CYS174 3.1 16.1 1.0
CG A:HIS157 3.1 15.8 1.0
CB A:CYS169 3.2 18.7 1.0
CB A:HIS157 3.5 16.1 1.0
CA A:HIS157 4.0 15.7 1.0
NE2 A:HIS157 4.1 17.0 1.0
N A:CYS169 4.1 20.1 1.0
CD2 A:HIS157 4.2 16.0 1.0
CA A:CYS169 4.3 20.4 1.0
O A:GLY156 4.4 15.9 1.0
CA A:CYS167 4.5 17.4 1.0
CA A:CYS174 4.6 15.0 1.0
C A:CYS167 4.8 18.9 1.0
N A:HIS157 4.8 15.5 1.0
CB A:SER171 4.9 19.1 1.0
C A:GLY156 4.9 16.1 1.0
C A:HIS157 5.0 17.0 1.0

Reference:

K.Miyazono, N.Tabei, S.Morita, Y.Ohnishi, S.Horinouchi, M.Tanokura. Substrate Recognition Mechanism and Substrate-Dependent Conformational Changes of An Rok Family Glucokinase From Streptomyces Griseus J.Bacteriol. V. 194 607 2012.
ISSN: ISSN 0021-9193
PubMed: 22101842
DOI: 10.1128/JB.06173-11
Page generated: Wed Aug 20 15:07:18 2025

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