Atomistry » Magnesium » PDB 3vdc-3vth » 3vkk
Atomistry »
  Magnesium »
    PDB 3vdc-3vth »
      3vkk »

Magnesium in PDB 3vkk: Crystal Structure of the Covalent Intermediate of Human Cytosolic Beta-Glucosidase-Mannose Complex

Enzymatic activity of Crystal Structure of the Covalent Intermediate of Human Cytosolic Beta-Glucosidase-Mannose Complex

All present enzymatic activity of Crystal Structure of the Covalent Intermediate of Human Cytosolic Beta-Glucosidase-Mannose Complex:
3.2.1.21;

Protein crystallography data

The structure of Crystal Structure of the Covalent Intermediate of Human Cytosolic Beta-Glucosidase-Mannose Complex, PDB code: 3vkk was solved by J.Noguchi, Y.Hayashi, N.Okino, M.Ito, M.Kimura, Y.Kakuta, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.69 / 2.00
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 65.733, 83.519, 90.892, 90.00, 90.00, 90.00
R / Rfree (%) 18.2 / 22.2

Other elements in 3vkk:

The structure of Crystal Structure of the Covalent Intermediate of Human Cytosolic Beta-Glucosidase-Mannose Complex also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the Covalent Intermediate of Human Cytosolic Beta-Glucosidase-Mannose Complex (pdb code 3vkk). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Crystal Structure of the Covalent Intermediate of Human Cytosolic Beta-Glucosidase-Mannose Complex, PDB code: 3vkk:

Magnesium binding site 1 out of 1 in 3vkk

Go back to Magnesium Binding Sites List in 3vkk
Magnesium binding site 1 out of 1 in the Crystal Structure of the Covalent Intermediate of Human Cytosolic Beta-Glucosidase-Mannose Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of the Covalent Intermediate of Human Cytosolic Beta-Glucosidase-Mannose Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg478

b:23.9
occ:1.00
 NH1 A:ARG75 3.0 10.1 0.5
OG A:SER223 3.1 18.9 1.0
OG1 A:THR372 3.2 19.4 1.0
OE1 A:GLN165 3.2 30.5 1.0
ND2 A:ASN164 3.2 17.1 1.0
NH2 A:ARG75 3.3 16.2 0.5
CB A:SER223 3.5 21.5 1.0
CZ A:ARG75 3.6 20.3 0.5
NH1 A:ARG75 3.6 28.8 0.5
CB A:GLN307 3.7 22.7 1.0
OE2 A:GLU373 3.7 25.2 1.0
CB A:GLU373 3.8 23.6 1.0
CB A:THR372 3.9 19.6 1.0
CD A:GLU373 3.9 24.1 1.0
CG A:GLN165 3.9 25.6 1.0
C A:THR372 4.0 20.9 1.0
CD A:GLN165 4.0 30.7 1.0
CG A:GLU373 4.1 25.1 1.0
N A:GLU373 4.1 20.4 1.0
CZ A:ARG75 4.1 27.5 0.5
NH2 A:ARG75 4.2 25.0 0.5
O A:THR372 4.3 18.4 1.0
CG A:ASN164 4.4 22.1 1.0
CG A:GLN307 4.4 25.2 1.0
CA A:GLN307 4.4 23.1 1.0
CA A:THR372 4.5 19.1 1.0
N A:GLN307 4.5 22.3 1.0
CA A:GLU373 4.6 23.2 1.0
OE1 A:GLU373 4.6 25.9 1.0
NE A:ARG75 4.8 19.5 0.5
C A:VAL306 4.8 21.8 1.0
O A:VAL306 4.9 21.6 1.0
OD1 A:ASN164 4.9 24.1 1.0
CA A:SER223 4.9 20.9 1.0

Reference:

J.Noguchi, Y.Hayashi, N.Okino, M.Ito, M.Kimura, Y.Kakuta. Structural Basis For Inhibition Mechanism of Human Cytosolic Beta-Glucosidase By Monnoside To Be Published.
Page generated: Thu Aug 15 13:04:57 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy